Animal-Genome cDNA 20110601C-007667


Search to RefSeqBP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-007667
         (1041 letters)

Database: RefSeq49_BP.fasta 
           33,088 sequences; 17,681,374 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_001030196.1| mitochondrial import inner membrane transloc...   595   e-170
Alignment   gi|NP_001179369.1| carboxy-terminal domain RNA polymerase II po...    80   3e-15
Alignment   gi|XP_002685616.1| PREDICTED: CTD (carboxy-terminal domain, RNA...    80   3e-15
Alignment   gi|NP_001180010.2| CTD small phosphatase-like protein [Bos taur...    80   4e-15
Alignment   gi|XP_002696988.1| PREDICTED: small CTD phosphatase 3-like [Bos...    80   4e-15
Alignment   gi|NP_001178334.1| CTD (carboxy-terminal domain, RNA polymerase...    75   7e-14
Alignment   gi|XP_002691164.1| PREDICTED: CTD (carboxy-terminal domain, RNA...    75   7e-14
Alignment   gi|NP_001039400.1| carboxy-terminal domain RNA polymerase II po...    74   2e-13
Alignment   gi|NP_001039491.1| CTD nuclear envelope phosphatase 1 [Bos taur...    63   5e-10

>ref|NP_001030196.1| mitochondrial import inner membrane translocase subunit TIM50
            precursor [Bos taurus].
          Length = 355

 Score =  595 bits (1534), Expect = e-170
 Identities = 296/332 (89%), Positives = 300/332 (90%)
 Frame = +1

Query: 34   MAASAGLFLRLRSGLLQGARGLCARLATAPPRAPDQTAEIGSRAGTKVQVQGPQQQRSSE 213
            MAASA +FLRLRSGL QGARGLCARLAT PPRAPDQ AEIGSRAGTK Q QGPQQQRSSE
Sbjct: 1    MAASAAVFLRLRSGLRQGARGLCARLATPPPRAPDQAAEIGSRAGTKAQTQGPQQQRSSE 60

Query: 214  GPSYAKKVXXXXXXXXXXXXTVSIVYIFGNNSVDENGAKIPDEFDNDPILVQQLRRTYKY 393
            GPSYAKKV            TVS++YIFGNN+VDENGAKIPDEFDNDPILVQQLRRTYKY
Sbjct: 61   GPSYAKKVALWLARLLGAGGTVSVIYIFGNNAVDENGAKIPDEFDNDPILVQQLRRTYKY 120

Query: 394  FKDYRQMIIEPTSPCLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIE 573
            FKDYRQMIIEPTSPCLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIE
Sbjct: 121  FKDYRQMIIEPTSPCLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIE 180

Query: 574  TLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLN 753
            TLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLN
Sbjct: 181  TLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLN 240

Query: 754  RDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
            RDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL
Sbjct: 241  RDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 300

Query: 934  EHYALEEDPLEAFKXXXXXXXXXXXXXPAELS 1029
            EHYALEEDPLEAFK              AELS
Sbjct: 301  EHYALEEDPLEAFKQRQSRLEQEEQQRLAELS 332


>ref|NP_001179369.1| carboxy-terminal domain RNA polymerase II polypeptide A small
           phosphatase 1 [Bos taurus].
          Length = 260

 Score = 80.1 bits (196), Expect = 3e-15
 Identities = 51/158 (32%), Positives = 83/158 (52%)
 Frame = +1

Query: 460 EPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIETLFQQLAPLYEIVIFTSETGMT 639
           +P     + + +E+ GV+ H  + L       KRP ++   Q++  L+E V+FT+     
Sbjct: 106 KPVNNADFIIPVEIDGVV-HQVYVL-------KRPHVDEFLQRMGELFECVLFTASLAKY 157

Query: 640 AFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYN 819
           A P+ D +D  G    RLFR++  +  G++VKD+S L RD  RV+++D    ++   P N
Sbjct: 158 ADPVADLLDKWGAFRARLFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDN 217

Query: 820 GVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
            V +  W  N  D  L DL  F +   L+ V+DV +VL
Sbjct: 218 AVPVASWFDNMSDTELHDLLPFFE--QLSRVDDVYSVL 253


>ref|XP_002685616.1| PREDICTED: CTD (carboxy-terminal domain, RNA polymerase II,
           polypeptide A) small phosphatase 1-like [Bos taurus].
          Length = 260

 Score = 80.1 bits (196), Expect = 3e-15
 Identities = 51/158 (32%), Positives = 83/158 (52%)
 Frame = +1

Query: 460 EPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIETLFQQLAPLYEIVIFTSETGMT 639
           +P     + + +E+ GV+ H  + L       KRP ++   Q++  L+E V+FT+     
Sbjct: 106 KPVNNADFIIPVEIDGVV-HQVYVL-------KRPHVDEFLQRMGELFECVLFTASLAKY 157

Query: 640 AFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYN 819
           A P+ D +D  G    RLFR++  +  G++VKD+S L RD  RV+++D    ++   P N
Sbjct: 158 ADPVADLLDKWGAFRARLFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDN 217

Query: 820 GVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
            V +  W  N  D  L DL  F +   L+ V+DV +VL
Sbjct: 218 AVPVASWFDNMSDTELHDLLPFFE--QLSRVDDVYSVL 253


>ref|NP_001180010.2| CTD small phosphatase-like protein [Bos taurus].
          Length = 276

 Score = 79.7 bits (195), Expect = 4e-15
 Identities = 57/195 (29%), Positives = 97/195 (49%), Gaps = 17/195 (8%)
 Frame = +1

Query: 400 DYRQMIIEPTSPC--LLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRF------- 552
           D RQ+I  P+ P   LLP+     Y +    +V++L   L+H  +   +   F       
Sbjct: 80  DQRQIIPIPSPPAKYLLPEVTVLDYGKK--CVVIDLDETLVHSSFKPISNADFIVPVEID 137

Query: 553 --------KKRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDAT 708
                    KRP ++   Q++  L+E V+FT+     A P+ D +D  G    RLFR++ 
Sbjct: 138 GTIHQVYVLKRPHVDEFLQRMGQLFECVLFTASLAKYADPVADLLDRWGVFRARLFRESC 197

Query: 709 RYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL 888
            +  G++VKD+S L R+ ++V++VD    ++   P N V ++ W  +  D  LLDL  F 
Sbjct: 198 VFHRGNYVKDLSRLGRELSKVIIVDNSPASYIFHPENAVPVQSWFDDMTDTELLDLIPFF 257

Query: 889 KTIALNGVEDVRTVL 933
           +   L+  +DV ++L
Sbjct: 258 E--GLSQEDDVYSML 270


>ref|XP_002696988.1| PREDICTED: small CTD phosphatase 3-like [Bos taurus].
          Length = 276

 Score = 79.7 bits (195), Expect = 4e-15
 Identities = 57/195 (29%), Positives = 97/195 (49%), Gaps = 17/195 (8%)
 Frame = +1

Query: 400 DYRQMIIEPTSPC--LLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRF------- 552
           D RQ+I  P+ P   LLP+     Y +    +V++L   L+H  +   +   F       
Sbjct: 80  DQRQIIPIPSPPAKYLLPEVTVLDYGKK--CVVIDLDETLVHSSFKPISNADFIVPVEID 137

Query: 553 --------KKRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDAT 708
                    KRP ++   Q++  L+E V+FT+     A P+ D +D  G    RLFR++ 
Sbjct: 138 GTIHQVYVLKRPHVDEFLQRMGQLFECVLFTASLAKYADPVADLLDRWGVFRARLFRESC 197

Query: 709 RYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL 888
            +  G++VKD+S L R+ ++V++VD    ++   P N V ++ W  +  D  LLDL  F 
Sbjct: 198 VFHRGNYVKDLSRLGRELSKVIIVDNSPASYIFHPENAVPVQSWFDDMTDTELLDLIPFF 257

Query: 889 KTIALNGVEDVRTVL 933
           +   L+  +DV ++L
Sbjct: 258 E--GLSQEDDVYSML 270


>ref|NP_001178334.1| CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A)
           small phosphatase like 2 [Bos taurus].
          Length = 466

 Score = 75.5 bits (184), Expect = 7e-14
 Identities = 50/167 (29%), Positives = 89/167 (53%), Gaps = 17/167 (10%)
 Frame = +1

Query: 475 PPYTLVLELTGVLLH------PEWSLATGWRFKK---------RPGIETLFQQLAPLYEI 609
           P ++LVL+L   L+H       + +L     F+          RP      ++++ +YEI
Sbjct: 286 PEFSLVLDLDETLVHCSLNELEDAALTFPVLFQDVIYQVYVRLRPFFREFLERMSQMYEI 345

Query: 610 VIFTSETGMTAFPLIDSVDPHG-FISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDC 786
           ++FT+   + A  L++ +DP    + +RLFR+    + G+++KD++ L RD ++ +++D 
Sbjct: 346 ILFTASKKVYADKLLNILDPKKQLVRHRLFREHCVCVQGNYIKDLNILGRDLSKTIIIDN 405

Query: 787 KKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL-KTIALNGVEDVR 924
             +AF  Q  NG+ +  W  + +D  LL L  FL K + LN  EDVR
Sbjct: 406 SPQAFAYQLSNGIPIESWFMDKNDNELLKLIPFLEKLVELN--EDVR 450


>ref|XP_002691164.1| PREDICTED: CTD (carboxy-terminal domain, RNA polymerase II,
           polypeptide A) small phosphatase like 2 [Bos taurus].
          Length = 466

 Score = 75.5 bits (184), Expect = 7e-14
 Identities = 50/167 (29%), Positives = 89/167 (53%), Gaps = 17/167 (10%)
 Frame = +1

Query: 475 PPYTLVLELTGVLLH------PEWSLATGWRFKK---------RPGIETLFQQLAPLYEI 609
           P ++LVL+L   L+H       + +L     F+          RP      ++++ +YEI
Sbjct: 286 PEFSLVLDLDETLVHCSLNELEDAALTFPVLFQDVIYQVYVRLRPFFREFLERMSQMYEI 345

Query: 610 VIFTSETGMTAFPLIDSVDPHG-FISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDC 786
           ++FT+   + A  L++ +DP    + +RLFR+    + G+++KD++ L RD ++ +++D 
Sbjct: 346 ILFTASKKVYADKLLNILDPKKQLVRHRLFREHCVCVQGNYIKDLNILGRDLSKTIIIDN 405

Query: 787 KKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL-KTIALNGVEDVR 924
             +AF  Q  NG+ +  W  + +D  LL L  FL K + LN  EDVR
Sbjct: 406 SPQAFAYQLSNGIPIESWFMDKNDNELLKLIPFLEKLVELN--EDVR 450


>ref|NP_001039400.1| carboxy-terminal domain RNA polymerase II polypeptide A small
           phosphatase 2 [Bos taurus].
          Length = 271

 Score = 74.3 bits (181), Expect = 2e-13
 Identities = 52/181 (28%), Positives = 85/181 (46%), Gaps = 15/181 (8%)
 Frame = +1

Query: 436 CLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRF---------------KKRPGI 570
           CLLP+   E   Q    +V++L   L+H  +       F                KRP +
Sbjct: 89  CLLPEVTEED--QGRICVVIDLDETLVHSSFKPINNADFIVPVEIEGTTHQVYVLKRPYV 146

Query: 571 ETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCL 750
           +   +++  L+E V+FT+     A P+ D +D  G    RLFR++  +  G +VKD+S L
Sbjct: 147 DEFLRRMGELFECVLFTASLAKYADPVTDLLDRCGVFRARLFRESCVFHQGCYVKDLSRL 206

Query: 751 NRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTV 930
            RD  + +++D    ++   P N V ++ W  +  D  LL+L    +   L+G EDV T 
Sbjct: 207 GRDLRKTLILDNSPASYIFHPENAVPVQSWFDDMADTELLNLIPIFE--ELSGAEDVYTS 264

Query: 931 L 933
           L
Sbjct: 265 L 265


>ref|NP_001039491.1| CTD nuclear envelope phosphatase 1 [Bos taurus].
          Length = 244

 Score = 62.8 bits (151), Expect = 5e-10
 Identities = 36/127 (28%), Positives = 65/127 (51%), Gaps = 1/127 (0%)
 Frame = +1

Query: 556 KRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVD-PHGFISYRLFRDATRYMDGHHV 732
           KRP ++   + ++  YE+V+FT+   +    + D +D     +  R +R       G ++
Sbjct: 110 KRPHVDFFLEVVSQWYELVVFTASMEIYGSAVADKLDNSRSILKRRYYRQHCTLELGSYI 169

Query: 733 KDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGV 912
           KD+S ++ D + +V++D    A+R  P N + ++ W  +  D  LL+L   L   AL   
Sbjct: 170 KDLSVVHSDLSSIVILDNSPGAYRSHPDNAIPIKSWFSDPSDTALLNLLPMLD--ALRFT 227

Query: 913 EDVRTVL 933
            DVR+VL
Sbjct: 228 ADVRSVL 234


  Database: RefSeq49_BP.fasta
    Posted date:  Oct 17, 2011  1:42 PM
  Number of letters in database: 17,681,374
  Number of sequences in database:  33,088
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33088
Number of Hits to DB: 36,402,675
Number of extensions: 998070
Number of successful extensions: 5026
Number of sequences better than 1.0e-05: 9
Number of HSP's gapped: 4992
Number of HSP's successfully gapped: 9
Length of query: 347
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 244
Effective length of database: 14,273,310
Effective search space: 3482687640
Effective search space used: 3482687640
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)

Search to RefSeqCP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-007667
         (1041 letters)

Database: RefSeq49_CP.fasta 
           33,336 sequences; 18,874,504 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|XP_533672.2| PREDICTED: similar to translocase of inner mito...   571   e-163
Alignment   gi|XP_851188.1| PREDICTED: similar to CTD (carboxy-terminal dom...    80   3e-15
Alignment   gi|XP_544655.1| PREDICTED: similar to Y47D9A.2a isoform 1 [Cani...    75   8e-14
Alignment   gi|XP_860720.1| PREDICTED: similar to Y47D9A.2a isoform 6 [Cani...    75   8e-14
Alignment   gi|XP_860654.1| PREDICTED: similar to Y47D9A.2a isoform 4 [Cani...    75   8e-14
Alignment   gi|XP_850070.1| PREDICTED: similar to Y47D9A.2a isoform 2 [Cani...    75   8e-14
Alignment   gi|XP_538256.2| PREDICTED: similar to Carboxy-terminal domain R...    74   2e-13
Alignment   gi|XP_851254.1| PREDICTED: similar to CTD small phosphatase-lik...    69   6e-12
Alignment   gi|XP_863251.1| PREDICTED: similar to CTD (carboxy-terminal dom...    66   6e-11
Alignment   gi|XP_860128.1| PREDICTED: similar to Carboxy-terminal domain R...    65   1e-10

>ref|XP_533672.2| PREDICTED: similar to translocase of inner mitochondrial membrane 50
            homolog [Canis familiaris].
          Length = 356

 Score =  571 bits (1471), Expect = e-163
 Identities = 287/333 (86%), Positives = 293/333 (87%), Gaps = 1/333 (0%)
 Frame = +1

Query: 34   MAASAGLFLRLRSGLLQGARGLCARLATAPPRAPDQTAEIGSRAGTKVQVQGPQQQ-RSS 210
            MAASA L LRLRS L +GARGLCARLAT PPR PDQ  EIGSR+GTK Q QGPQQQ R +
Sbjct: 1    MAASAALALRLRSELRRGARGLCARLATPPPRTPDQATEIGSRSGTKAQAQGPQQQQRGT 60

Query: 211  EGPSYAKKVXXXXXXXXXXXXTVSIVYIFGNNSVDENGAKIPDEFDNDPILVQQLRRTYK 390
            EGPSYAKKV            TVS+VYIFGNNSVDE GAKIPDEFDNDPILVQQLRRTYK
Sbjct: 61   EGPSYAKKVALWLAGLLGAGGTVSVVYIFGNNSVDETGAKIPDEFDNDPILVQQLRRTYK 120

Query: 391  YFKDYRQMIIEPTSPCLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGI 570
            YFKDYRQMIIEPTSPCLLPDPL+EPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGI
Sbjct: 121  YFKDYRQMIIEPTSPCLLPDPLKEPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGI 180

Query: 571  ETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCL 750
            ETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCL
Sbjct: 181  ETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCL 240

Query: 751  NRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTV 930
            NRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALN VEDVRTV
Sbjct: 241  NRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNRVEDVRTV 300

Query: 931  LEHYALEEDPLEAFKXXXXXXXXXXXXXPAELS 1029
            LEHYALE+DPLEAFK              AELS
Sbjct: 301  LEHYALEDDPLEAFKQRQSRLEQEEQQRLAELS 333


>ref|XP_851188.1| PREDICTED: similar to CTD (carboxy-terminal domain, RNA polymerase
           II, polypeptide A) small phosphatase 1 isoform 1 isoform
           1 [Canis familiaris].
          Length = 261

 Score = 80.1 bits (196), Expect = 3e-15
 Identities = 51/158 (32%), Positives = 83/158 (52%)
 Frame = +1

Query: 460 EPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIETLFQQLAPLYEIVIFTSETGMT 639
           +P     + + +E+ GV+ H  + L       KRP ++   Q++  L+E V+FT+     
Sbjct: 107 KPVNNADFIIPVEIDGVV-HQVYVL-------KRPHVDEFLQRMGELFECVLFTASLAKY 158

Query: 640 AFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYN 819
           A P+ D +D  G    RLFR++  +  G++VKD+S L RD  RV+++D    ++   P N
Sbjct: 159 ADPVADLLDKWGAFRARLFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDN 218

Query: 820 GVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
            V +  W  N  D  L DL  F +   L+ V+DV +VL
Sbjct: 219 AVPVASWFDNMSDTELHDLLPFFE--QLSRVDDVYSVL 254


>ref|XP_544655.1| PREDICTED: similar to Y47D9A.2a isoform 1 [Canis familiaris].
          Length = 466

 Score = 75.5 bits (184), Expect = 8e-14
 Identities = 50/167 (29%), Positives = 89/167 (53%), Gaps = 17/167 (10%)
 Frame = +1

Query: 475 PPYTLVLELTGVLLH------PEWSLATGWRFKK---------RPGIETLFQQLAPLYEI 609
           P ++LVL+L   L+H       + +L     F+          RP      ++++ +YEI
Sbjct: 286 PEFSLVLDLDETLVHCSLNELEDAALTFPVLFQDVIYQVYVRLRPFFREFLERMSQMYEI 345

Query: 610 VIFTSETGMTAFPLIDSVDPHG-FISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDC 786
           ++FT+   + A  L++ +DP    + +RLFR+    + G+++KD++ L RD ++ +++D 
Sbjct: 346 ILFTASKKVYADKLLNILDPKKQLVRHRLFREHCVCVQGNYIKDLNILGRDLSKTIIIDN 405

Query: 787 KKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL-KTIALNGVEDVR 924
             +AF  Q  NG+ +  W  + +D  LL L  FL K + LN  EDVR
Sbjct: 406 SPQAFAYQLSNGIPIESWFMDKNDNELLKLIPFLEKLVELN--EDVR 450


>ref|XP_860720.1| PREDICTED: similar to Y47D9A.2a isoform 6 [Canis familiaris].
          Length = 394

 Score = 75.5 bits (184), Expect = 8e-14
 Identities = 50/167 (29%), Positives = 89/167 (53%), Gaps = 17/167 (10%)
 Frame = +1

Query: 475 PPYTLVLELTGVLLH------PEWSLATGWRFKK---------RPGIETLFQQLAPLYEI 609
           P ++LVL+L   L+H       + +L     F+          RP      ++++ +YEI
Sbjct: 214 PEFSLVLDLDETLVHCSLNELEDAALTFPVLFQDVIYQVYVRLRPFFREFLERMSQMYEI 273

Query: 610 VIFTSETGMTAFPLIDSVDPHG-FISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDC 786
           ++FT+   + A  L++ +DP    + +RLFR+    + G+++KD++ L RD ++ +++D 
Sbjct: 274 ILFTASKKVYADKLLNILDPKKQLVRHRLFREHCVCVQGNYIKDLNILGRDLSKTIIIDN 333

Query: 787 KKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL-KTIALNGVEDVR 924
             +AF  Q  NG+ +  W  + +D  LL L  FL K + LN  EDVR
Sbjct: 334 SPQAFAYQLSNGIPIESWFMDKNDNELLKLIPFLEKLVELN--EDVR 378


>ref|XP_860654.1| PREDICTED: similar to Y47D9A.2a isoform 4 [Canis familiaris].
          Length = 466

 Score = 75.5 bits (184), Expect = 8e-14
 Identities = 50/167 (29%), Positives = 89/167 (53%), Gaps = 17/167 (10%)
 Frame = +1

Query: 475 PPYTLVLELTGVLLH------PEWSLATGWRFKK---------RPGIETLFQQLAPLYEI 609
           P ++LVL+L   L+H       + +L     F+          RP      ++++ +YEI
Sbjct: 286 PEFSLVLDLDETLVHCSLNELEDAALTFPVLFQDVIYQVYVRLRPFFREFLERMSQMYEI 345

Query: 610 VIFTSETGMTAFPLIDSVDPHG-FISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDC 786
           ++FT+   + A  L++ +DP    + +RLFR+    + G+++KD++ L RD ++ +++D 
Sbjct: 346 ILFTASKKVYADKLLNILDPKKQLVRHRLFREHCVCVQGNYIKDLNILGRDLSKTIIIDN 405

Query: 787 KKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL-KTIALNGVEDVR 924
             +AF  Q  NG+ +  W  + +D  LL L  FL K + LN  EDVR
Sbjct: 406 SPQAFAYQLSNGIPIESWFMDKNDNELLKLIPFLEKLVELN--EDVR 450


>ref|XP_850070.1| PREDICTED: similar to Y47D9A.2a isoform 2 [Canis familiaris].
          Length = 466

 Score = 75.5 bits (184), Expect = 8e-14
 Identities = 50/167 (29%), Positives = 89/167 (53%), Gaps = 17/167 (10%)
 Frame = +1

Query: 475 PPYTLVLELTGVLLH------PEWSLATGWRFKK---------RPGIETLFQQLAPLYEI 609
           P ++LVL+L   L+H       + +L     F+          RP      ++++ +YEI
Sbjct: 286 PEFSLVLDLDETLVHCSLNELEDAALTFPVLFQDVIYQVYVRLRPFFREFLERMSQMYEI 345

Query: 610 VIFTSETGMTAFPLIDSVDPHG-FISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDC 786
           ++FT+   + A  L++ +DP    + +RLFR+    + G+++KD++ L RD ++ +++D 
Sbjct: 346 ILFTASKKVYADKLLNILDPKKQLVRHRLFREHCVCVQGNYIKDLNILGRDLSKTIIIDN 405

Query: 787 KKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL-KTIALNGVEDVR 924
             +AF  Q  NG+ +  W  + +D  LL L  FL K + LN  EDVR
Sbjct: 406 SPQAFAYQLSNGIPIESWFMDKNDNELLKLIPFLEKLVELN--EDVR 450


>ref|XP_538256.2| PREDICTED: similar to Carboxy-terminal domain RNA polymerase II
           polypeptide A small phosphatase 2 (Small CTD phosphatase
           2) (SCP2) (Nuclear LIM interactor-interacting factor 2)
           (NLI-interacting factor 2) (Protein OS-4) isoform 1
           [Canis familiaris].
          Length = 271

 Score = 74.3 bits (181), Expect = 2e-13
 Identities = 52/181 (28%), Positives = 85/181 (46%), Gaps = 15/181 (8%)
 Frame = +1

Query: 436 CLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRFK---------------KRPGI 570
           CLLP+   E   Q    +V++L   L+H  +       F                KRP +
Sbjct: 89  CLLPEVTEED--QGRICVVIDLDETLVHSSFKPINNADFVVPVEIEGTTHQVYVLKRPYV 146

Query: 571 ETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCL 750
           +   +++  L+E V+FT+     A P+ D +D  G    RLFR++  +  G +VKD+S L
Sbjct: 147 DEFLRRMGELFECVLFTASLAKYADPVTDLLDRCGVFRARLFRESCVFHQGCYVKDLSRL 206

Query: 751 NRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTV 930
            RD  + +++D    ++   P N V ++ W  +  D  LL+L    +   L+G EDV T 
Sbjct: 207 GRDLRKTLILDNSPASYIFHPENAVPVQSWFDDMADTELLNLIPIFE--ELSGAEDVYTS 264

Query: 931 L 933
           L
Sbjct: 265 L 265


>ref|XP_851254.1| PREDICTED: similar to CTD small phosphatase-like protein
           (CTDSP-like) (Small C-terminal domain phosphatase 3)
           (Small CTD phosphatase 3) (SCP3) (Nuclear LIM
           interactor-interacting factor 1) (NLI-interacting factor
           1) (NIF-like protein) (RBSP3) (YA22 protein) (... [Canis
           familiaris].
          Length = 347

 Score = 69.3 bits (168), Expect = 6e-12
 Identities = 57/214 (26%), Positives = 98/214 (45%), Gaps = 36/214 (16%)
 Frame = +1

Query: 400 DYRQMIIEPTSPC--LLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRF------- 552
           D RQ+I  P+ P   LLP+     Y +    +V++L   L+H  +   +   F       
Sbjct: 132 DQRQVIPIPSPPAKYLLPEVTVLDYGKK--CVVIDLDETLVHSSFKPISNADFIVPVEID 189

Query: 553 --------KKRPGIETLFQQLAPLYEIVIFTSE-------------------TGMTAFPL 651
                    KRP ++   Q++  L+E V+FT+                    +   A P+
Sbjct: 190 GTIHQVYVLKRPHVDEFLQRMGQLFECVLFTASLAKWRCPPLSAAPAWLSCVSSQYADPV 249

Query: 652 IDSVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVAL 831
            D +D  G    RLFR++  +  G++VKD+S L R+ ++V++VD    ++   P N V +
Sbjct: 250 ADLLDRWGVFRARLFRESCVFHRGNYVKDLSRLGRELSKVIIVDNSPASYIFHPENAVPV 309

Query: 832 RPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
           + W  +  D  LLDL  F +   L+  +DV ++L
Sbjct: 310 QSWFDDMTDTELLDLIPFFE--GLSREDDVYSML 341


>ref|XP_863251.1| PREDICTED: similar to CTD (carboxy-terminal domain, RNA polymerase
           II, polypeptide A) small phosphatase 1 isoform 2 isoform
           2 [Canis familiaris].
          Length = 296

 Score = 65.9 bits (159), Expect = 6e-11
 Identities = 39/124 (31%), Positives = 66/124 (53%)
 Frame = +1

Query: 460 EPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIETLFQQLAPLYEIVIFTSETGMT 639
           +P     + + +E+ GV+ H  + L       KRP ++   Q++  L+E V+FT+     
Sbjct: 106 KPVNNADFIIPVEIDGVV-HQVYVL-------KRPHVDEFLQRMGELFECVLFTASLAKY 157

Query: 640 AFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYN 819
           A P+ D +D  G    RLFR++  +  G++VKD+S L RD  RV+++D    ++   P N
Sbjct: 158 ADPVADLLDKWGAFRARLFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDN 217

Query: 820 GVAL 831
            V L
Sbjct: 218 AVRL 221


>ref|XP_860128.1| PREDICTED: similar to Carboxy-terminal domain RNA polymerase II
           polypeptide A small phosphatase 2 (Small CTD phosphatase
           2) (SCP2) (Nuclear LIM interactor-interacting factor 2)
           (NLI-interacting factor 2) (Protein OS-4) isoform 2
           [Canis familiaris].
          Length = 119

 Score = 64.7 bits (156), Expect = 1e-10
 Identities = 38/115 (33%), Positives = 61/115 (53%)
 Frame = +1

Query: 589 LAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPAR 768
           +  L+E V+FT+     A P+ D +D  G    RLFR++  +  G +VKD+S L RD  +
Sbjct: 1   MGELFECVLFTASLAKYADPVTDLLDRCGVFRARLFRESCVFHQGCYVKDLSRLGRDLRK 60

Query: 769 VVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
            +++D    ++   P N V ++ W  +  D  LL+L    +   L+G EDV T L
Sbjct: 61  TLILDNSPASYIFHPENAVPVQSWFDDMADTELLNLIPIFE--ELSGAEDVYTSL 113


  Database: RefSeq49_CP.fasta
    Posted date:  Oct 17, 2011  1:42 PM
  Number of letters in database: 18,874,504
  Number of sequences in database:  33,336
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33336
Number of Hits to DB: 38,037,479
Number of extensions: 1031979
Number of successful extensions: 5052
Number of sequences better than 1.0e-05: 14
Number of HSP's gapped: 5018
Number of HSP's successfully gapped: 14
Length of query: 347
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 243
Effective length of database: 15,407,560
Effective search space: 3744037080
Effective search space used: 3744037080
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)

Search to RefSeqMP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-007667
         (1041 letters)

Database: RefSeq49_MP.fasta 
           30,036 sequences; 15,617,559 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_079892.1| mitochondrial import inner membrane translocase...   552   e-157
Alignment   gi|NP_598471.3| CTD small phosphatase-like protein [Mus musculu...    80   3e-15
Alignment   gi|NP_694728.1| carboxy-terminal domain RNA polymerase II polyp...    80   3e-15
Alignment   gi|NP_997615.1| CTD small phosphatase-like protein 2 [Mus muscu...    75   6e-14
Alignment   gi|NP_001106941.1| carboxy-terminal domain RNA polymerase II po...    74   2e-13
Alignment   gi|NP_666124.1| carboxy-terminal domain RNA polymerase II polyp...    65   7e-11
Alignment   gi|NP_080293.1| CTD nuclear envelope phosphatase 1 [Mus musculu...    63   4e-10

>ref|NP_079892.1| mitochondrial import inner membrane translocase subunit TIM50
            precursor [Mus musculus].
          Length = 353

 Score =  552 bits (1422), Expect = e-157
 Identities = 277/332 (83%), Positives = 285/332 (85%)
 Frame = +1

Query: 34   MAASAGLFLRLRSGLLQGARGLCARLATAPPRAPDQTAEIGSRAGTKVQVQGPQQQRSSE 213
            MAASA LF RLRSGL  GARGLC RLA  PPR P+Q  EI +R G+K Q  GPQ Q  SE
Sbjct: 1    MAASAALFSRLRSGLRVGARGLCTRLAPPPPRTPEQVTEIANRGGSKAQ--GPQHQPGSE 58

Query: 214  GPSYAKKVXXXXXXXXXXXXTVSIVYIFGNNSVDENGAKIPDEFDNDPILVQQLRRTYKY 393
            GPSYAKK+            TVSIVYIFGNN VDENG KIPDEFD+DPILVQQLRRTYKY
Sbjct: 59   GPSYAKKIALWIAGLLGAGGTVSIVYIFGNNPVDENGTKIPDEFDSDPILVQQLRRTYKY 118

Query: 394  FKDYRQMIIEPTSPCLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIE 573
            FKDYRQMIIEPTSPCLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIE
Sbjct: 119  FKDYRQMIIEPTSPCLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIE 178

Query: 574  TLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLN 753
            TLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYM+GHHVKDISCLN
Sbjct: 179  TLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMEGHHVKDISCLN 238

Query: 754  RDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
            RDPARVVVVDCKKEAFRLQP+NGVALRPWDGNSDDRVLLDLSAFLKTIALN VEDVRTVL
Sbjct: 239  RDPARVVVVDCKKEAFRLQPFNGVALRPWDGNSDDRVLLDLSAFLKTIALNQVEDVRTVL 298

Query: 934  EHYALEEDPLEAFKXXXXXXXXXXXXXPAELS 1029
            EHYALE+DPLEAFK              AELS
Sbjct: 299  EHYALEDDPLEAFKQRQSRLEQEEQQRLAELS 330


>ref|NP_598471.3| CTD small phosphatase-like protein [Mus musculus].
          Length = 276

 Score = 80.1 bits (196), Expect = 3e-15
 Identities = 57/195 (29%), Positives = 97/195 (49%), Gaps = 17/195 (8%)
 Frame = +1

Query: 400 DYRQMIIEPTSPC--LLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRF------- 552
           D RQ+I  P+ P   LLP+     Y +    +V++L   L+H  +   +   F       
Sbjct: 80  DQRQVIPVPSPPAKYLLPEVTVLDYGKK--CVVIDLDETLVHSSFKPISNADFIVPVEID 137

Query: 553 --------KKRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDAT 708
                    KRP ++   Q++  L+E V+FT+     A P+ D +D  G    RLFR++ 
Sbjct: 138 GTIHQVYVLKRPHVDEFLQRMGQLFECVLFTASLAKYADPVADLLDRWGVFRARLFRESC 197

Query: 709 RYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL 888
            +  G++VKD+S L R+ ++V++VD    ++   P N V ++ W  +  D  LLDL  F 
Sbjct: 198 VFHRGNYVKDLSRLGRELSKVIIVDNSPASYIFHPENAVPVQSWFDDMTDTELLDLIPFF 257

Query: 889 KTIALNGVEDVRTVL 933
           +   L+  +DV ++L
Sbjct: 258 E--GLSREDDVYSML 270


>ref|NP_694728.1| carboxy-terminal domain RNA polymerase II polypeptide A small
           phosphatase 1 [Mus musculus].
          Length = 261

 Score = 80.1 bits (196), Expect = 3e-15
 Identities = 51/158 (32%), Positives = 83/158 (52%)
 Frame = +1

Query: 460 EPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIETLFQQLAPLYEIVIFTSETGMT 639
           +P     + + +E+ GV+ H  + L       KRP ++   Q++  L+E V+FT+     
Sbjct: 107 KPVNNADFIIPVEIDGVV-HQVYVL-------KRPHVDEFLQRMGELFECVLFTASLAKY 158

Query: 640 AFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYN 819
           A P+ D +D  G    RLFR++  +  G++VKD+S L RD  RV+++D    ++   P N
Sbjct: 159 ADPVADLLDKWGAFRARLFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDN 218

Query: 820 GVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
            V +  W  N  D  L DL  F +   L+ V+DV +VL
Sbjct: 219 AVPVASWFDNMSDTELHDLLPFFE--QLSRVDDVYSVL 254


>ref|NP_997615.1| CTD small phosphatase-like protein 2 [Mus musculus].
          Length = 465

 Score = 75.5 bits (184), Expect = 6e-14
 Identities = 50/167 (29%), Positives = 89/167 (53%), Gaps = 17/167 (10%)
 Frame = +1

Query: 475 PPYTLVLELTGVLLH------PEWSLATGWRFKK---------RPGIETLFQQLAPLYEI 609
           P ++LVL+L   L+H       + +L     F+          RP      ++++ +YEI
Sbjct: 285 PEFSLVLDLDETLVHCSLNELEDAALTFPVLFQDVIYQVYVRLRPFFREFLERMSQMYEI 344

Query: 610 VIFTSETGMTAFPLIDSVDPHG-FISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDC 786
           ++FT+   + A  L++ +DP    + +RLFR+    + G+++KD++ L RD ++ +++D 
Sbjct: 345 ILFTASKKVYADKLLNILDPKKQLVRHRLFREHCVCVQGNYIKDLNILGRDLSKTIIIDN 404

Query: 787 KKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL-KTIALNGVEDVR 924
             +AF  Q  NG+ +  W  + +D  LL L  FL K + LN  EDVR
Sbjct: 405 SPQAFAYQLSNGIPIESWFMDKNDNELLKLIPFLEKLVELN--EDVR 449


>ref|NP_001106941.1| carboxy-terminal domain RNA polymerase II polypeptide A small
           phosphatase 2 isoform a [Mus musculus].
          Length = 270

 Score = 73.9 bits (180), Expect = 2e-13
 Identities = 52/181 (28%), Positives = 85/181 (46%), Gaps = 15/181 (8%)
 Frame = +1

Query: 436 CLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRF---------------KKRPGI 570
           CLLP+   +   Q    +V++L   L+H  +       F                KRP +
Sbjct: 88  CLLPEVTEQD--QGRICVVIDLDETLVHSSFKPINNADFIVPVEIEGTTHQVYVLKRPYV 145

Query: 571 ETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCL 750
           +   +++  L+E V+FT+     A P+ D +D  G    RLFR+A  +  G +VKD+S L
Sbjct: 146 DEFLRRMGELFECVLFTASLAKYADPVTDLLDRCGVFRARLFREACVFHQGCYVKDLSRL 205

Query: 751 NRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTV 930
            RD  + V++D    ++   P N V ++ W  +  D  LL+L    +   L+G +DV T 
Sbjct: 206 GRDLRKTVILDNSPASYIFHPENAVPVQSWFDDMADTELLNLIPVFE--ELSGTDDVYTS 263

Query: 931 L 933
           L
Sbjct: 264 L 264


>ref|NP_666124.1| carboxy-terminal domain RNA polymerase II polypeptide A small
           phosphatase 2 isoform b [Mus musculus].
          Length = 119

 Score = 65.5 bits (158), Expect = 7e-11
 Identities = 39/115 (33%), Positives = 61/115 (53%)
 Frame = +1

Query: 589 LAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPAR 768
           +  L+E V+FT+     A P+ D +D  G    RLFR+A  +  G +VKD+S L RD  +
Sbjct: 1   MGELFECVLFTASLAKYADPVTDLLDRCGVFRARLFREACVFHQGCYVKDLSRLGRDLRK 60

Query: 769 VVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
            V++D    ++   P N V ++ W  +  D  LL+L    +   L+G +DV T L
Sbjct: 61  TVILDNSPASYIFHPENAVPVQSWFDDMADTELLNLIPVFE--ELSGTDDVYTSL 113


>ref|NP_080293.1| CTD nuclear envelope phosphatase 1 [Mus musculus].
          Length = 244

 Score = 62.8 bits (151), Expect = 4e-10
 Identities = 36/127 (28%), Positives = 65/127 (51%), Gaps = 1/127 (0%)
 Frame = +1

Query: 556 KRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVD-PHGFISYRLFRDATRYMDGHHV 732
           KRP ++   + ++  YE+V+FT+   +    + D +D     +  R +R       G ++
Sbjct: 110 KRPHVDFFLEVVSQWYELVVFTASMEIYGSAVADKLDNSRSILKRRYYRQHCTLELGSYI 169

Query: 733 KDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGV 912
           KD+S ++ D + +V++D    A+R  P N + ++ W  +  D  LL+L   L   AL   
Sbjct: 170 KDLSVVHSDLSSIVILDNSPGAYRSHPDNAIPIKSWFSDPSDTALLNLLPMLD--ALRFT 227

Query: 913 EDVRTVL 933
            DVR+VL
Sbjct: 228 ADVRSVL 234


  Database: RefSeq49_MP.fasta
    Posted date:  Oct 17, 2011  1:42 PM
  Number of letters in database: 15,617,559
  Number of sequences in database:  30,036
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 30036
Number of Hits to DB: 31,327,606
Number of extensions: 836610
Number of successful extensions: 3709
Number of sequences better than 1.0e-05: 7
Number of HSP's gapped: 3695
Number of HSP's successfully gapped: 7
Length of query: 347
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 245
Effective length of database: 12,553,887
Effective search space: 3075702315
Effective search space used: 3075702315
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)

Search to RefSeqSP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-007667
         (1041 letters)

Database: RefSeq49_SP.fasta 
           24,897 sequences; 11,343,932 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|XP_003355956.1| PREDICTED: LOW QUALITY PROTEIN: mitochondria...   595   e-170
Alignment   gi|XP_003358412.1| PREDICTED: CTD small phosphatase-like protei...    80   2e-15
Alignment   gi|XP_003358411.1| PREDICTED: CTD small phosphatase-like protei...    80   2e-15
Alignment   gi|XP_003132160.2| PREDICTED: CTD small phosphatase-like protei...    79   5e-15
Alignment   gi|XP_003361933.1| PREDICTED: carboxy-terminal domain RNA polym...    65   8e-11
Alignment   gi|XP_003358300.1| PREDICTED: CTD nuclear envelope phosphatase ...    63   3e-10
Alignment   gi|XP_003131985.2| PREDICTED: CTD nuclear envelope phosphatase ...    63   3e-10

>ref|XP_003355956.1| PREDICTED: LOW QUALITY PROTEIN: mitochondrial import inner membrane
            translocase subunit TIM50-like [Sus scrofa].
          Length = 382

 Score =  595 bits (1534), Expect = e-170
 Identities = 306/359 (85%), Positives = 306/359 (85%), Gaps = 27/359 (7%)
 Frame = +1

Query: 34   MAASAGLFLRLRSGLLQGARGLCARLATAPPRAPDQTAEIGSRAGTKVQVQGPQQQRSSE 213
            MAASAGLFLRLRSGLLQGARGLCARLATAPPRAPDQTAEIGSRAGTKVQVQGPQQQRSSE
Sbjct: 1    MAASAGLFLRLRSGLLQGARGLCARLATAPPRAPDQTAEIGSRAGTKVQVQGPQQQRSSE 60

Query: 214  GPSYAKKVXXXXXXXXXXXXTVSIVYIFGNNSVDENGAKIPDEFDNDPILVQQLRRTYKY 393
            GPSYAKKV            TVSIVYIFGNNSVDENGAKIPDEFDNDPILVQQLRRTYKY
Sbjct: 61   GPSYAKKVALWLAGLLGAGGTVSIVYIFGNNSVDENGAKIPDEFDNDPILVQQLRRTYKY 120

Query: 394  FKDYRQMIIEPTSPCLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIE 573
            FKDYRQMIIEPTSPCLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIE
Sbjct: 121  FKDYRQMIIEPTSPCLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIE 180

Query: 574  TLFQQLAPLYEIVIFTSETGM---------------------------TAFPLIDSVDPH 672
            TLFQQLAPLYEIVIFTSETGM                           TAFPLIDSVDPH
Sbjct: 181  TLFQQLAPLYEIVIFTSETGMVRRRAAEGGSMWRAASLTALPVPSHPQTAFPLIDSVDPH 240

Query: 673  GFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNS 852
            GFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNS
Sbjct: 241  GFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNS 300

Query: 853  DDRVLLDLSAFLKTIALNGVEDVRTVLEHYALEEDPLEAFKXXXXXXXXXXXXXPAELS 1029
            DDRVLLDLSAFLKTIALNGVEDVRTVLEHYALEEDPLEAFK              AELS
Sbjct: 301  DDRVLLDLSAFLKTIALNGVEDVRTVLEHYALEEDPLEAFKQRQSRLEQEEQQRLAELS 359


>ref|XP_003358412.1| PREDICTED: CTD small phosphatase-like protein-like [Sus scrofa].
          Length = 256

 Score = 79.7 bits (195), Expect = 2e-15
 Identities = 57/195 (29%), Positives = 97/195 (49%), Gaps = 17/195 (8%)
 Frame = +1

Query: 400 DYRQMIIEPTSPC--LLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRF------- 552
           D RQ+I  P+ P   LLP+     Y +    +V++L   L+H  +   +   F       
Sbjct: 60  DQRQVIPIPSPPAKYLLPEVTVLDYGKK--CVVIDLDETLVHSSFKPISNADFIVPVEID 117

Query: 553 --------KKRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDAT 708
                    KRP ++   Q++  L+E V+FT+     A P+ D +D  G    RLFR++ 
Sbjct: 118 GTIHQVYVLKRPHVDEFLQRMGQLFECVLFTASLAKYADPVADLLDRWGVFRARLFRESC 177

Query: 709 RYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL 888
            +  G++VKD+S L R+ ++V++VD    ++   P N V ++ W  +  D  LLDL  F 
Sbjct: 178 VFHRGNYVKDLSRLGRELSKVIIVDNSPASYIFHPENAVPVQSWFDDMTDTELLDLIPFF 237

Query: 889 KTIALNGVEDVRTVL 933
           +   L+  +DV ++L
Sbjct: 238 E--GLSQEDDVYSML 250


>ref|XP_003358411.1| PREDICTED: CTD small phosphatase-like protein-like [Sus scrofa].
          Length = 276

 Score = 79.7 bits (195), Expect = 2e-15
 Identities = 57/195 (29%), Positives = 97/195 (49%), Gaps = 17/195 (8%)
 Frame = +1

Query: 400 DYRQMIIEPTSPC--LLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRF------- 552
           D RQ+I  P+ P   LLP+     Y +    +V++L   L+H  +   +   F       
Sbjct: 80  DQRQVIPIPSPPAKYLLPEVTVLDYGKK--CVVIDLDETLVHSSFKPISNADFIVPVEID 137

Query: 553 --------KKRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDAT 708
                    KRP ++   Q++  L+E V+FT+     A P+ D +D  G    RLFR++ 
Sbjct: 138 GTIHQVYVLKRPHVDEFLQRMGQLFECVLFTASLAKYADPVADLLDRWGVFRARLFRESC 197

Query: 709 RYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL 888
            +  G++VKD+S L R+ ++V++VD    ++   P N V ++ W  +  D  LLDL  F 
Sbjct: 198 VFHRGNYVKDLSRLGRELSKVIIVDNSPASYIFHPENAVPVQSWFDDMTDTELLDLIPFF 257

Query: 889 KTIALNGVEDVRTVL 933
           +   L+  +DV ++L
Sbjct: 258 E--GLSQEDDVYSML 270


>ref|XP_003132160.2| PREDICTED: CTD small phosphatase-like protein-like [Sus scrofa].
          Length = 265

 Score = 78.6 bits (192), Expect = 5e-15
 Identities = 58/212 (27%), Positives = 98/212 (46%), Gaps = 32/212 (15%)
 Frame = +1

Query: 394 FKDYRQMIIEPTSPCLLPDPLRE---------PYYQPPYTL--------VLELTGVLLHP 522
           F+DY       +SP +LP  + E          Y  P  T+        V++L   L+H 
Sbjct: 50  FRDYNVEAPPGSSPSVLPPLVEENGGLQKPPAKYLLPEVTVLDYGKKCVVIDLDETLVHS 109

Query: 523 EWSLATGWRF---------------KKRPGIETLFQQLAPLYEIVIFTSETGMTAFPLID 657
            +   +   F                KRP ++   Q++  L+E V+FT+     A P+ D
Sbjct: 110 SFKPISNADFIVPVEIDGTIHQVYVLKRPHVDEFLQRMGQLFECVLFTASLAKYADPVAD 169

Query: 658 SVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRP 837
            +D  G    RLFR++  +  G++VKD+S L R+ ++V++VD    ++   P N V ++ 
Sbjct: 170 LLDRWGVFRARLFRESCVFHRGNYVKDLSRLGRELSKVIIVDNSPASYIFHPENAVPVQS 229

Query: 838 WDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
           W  +  D  LLDL  F +   L+  +DV ++L
Sbjct: 230 WFDDMTDTELLDLIPFFE--GLSQEDDVYSML 259


>ref|XP_003361933.1| PREDICTED: carboxy-terminal domain RNA polymerase II polypeptide A
           small phosphatase 2-like [Sus scrofa].
          Length = 119

 Score = 64.7 bits (156), Expect = 8e-11
 Identities = 38/115 (33%), Positives = 61/115 (53%)
 Frame = +1

Query: 589 LAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPAR 768
           +  L+E V+FT+     A P+ D +D  G    RLFR++  +  G +VKD+S L RD  +
Sbjct: 1   MGELFECVLFTASLAKYADPVTDLLDRCGVFRARLFRESCVFHQGCYVKDLSRLGRDLRK 60

Query: 769 VVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
            +++D    ++   P N V ++ W  +  D  LL+L    +   L+G EDV T L
Sbjct: 61  TLILDNSPASYIFHPENAVPVQSWFDDMADTELLNLIPIFE--ELSGAEDVYTSL 113


>ref|XP_003358300.1| PREDICTED: CTD nuclear envelope phosphatase 1-like [Sus scrofa].
          Length = 255

 Score = 62.8 bits (151), Expect = 3e-10
 Identities = 36/127 (28%), Positives = 65/127 (51%), Gaps = 1/127 (0%)
 Frame = +1

Query: 556 KRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVD-PHGFISYRLFRDATRYMDGHHV 732
           KRP ++   + ++  YE+V+FT+   +    + D +D     +  R +R       G ++
Sbjct: 121 KRPHVDFFLEVVSQWYELVVFTASMEIYGSAVADKLDNSRSILKRRYYRQHCTLELGSYI 180

Query: 733 KDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGV 912
           KD+S ++ D + +V++D    A+R  P N + ++ W  +  D  LL+L   L   AL   
Sbjct: 181 KDLSVVHSDLSSIVILDNSPGAYRSHPDNAIPIKSWFSDPSDTALLNLLPMLD--ALRFT 238

Query: 913 EDVRTVL 933
            DVR+VL
Sbjct: 239 ADVRSVL 245


>ref|XP_003131985.2| PREDICTED: CTD nuclear envelope phosphatase 1-like [Sus scrofa].
          Length = 244

 Score = 62.8 bits (151), Expect = 3e-10
 Identities = 36/127 (28%), Positives = 65/127 (51%), Gaps = 1/127 (0%)
 Frame = +1

Query: 556 KRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVD-PHGFISYRLFRDATRYMDGHHV 732
           KRP ++   + ++  YE+V+FT+   +    + D +D     +  R +R       G ++
Sbjct: 110 KRPHVDFFLEVVSQWYELVVFTASMEIYGSAVADKLDNSRSILKRRYYRQHCTLELGSYI 169

Query: 733 KDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGV 912
           KD+S ++ D + +V++D    A+R  P N + ++ W  +  D  LL+L   L   AL   
Sbjct: 170 KDLSVVHSDLSSIVILDNSPGAYRSHPDNAIPIKSWFSDPSDTALLNLLPMLD--ALRFT 227

Query: 913 EDVRTVL 933
            DVR+VL
Sbjct: 228 ADVRSVL 234


  Database: RefSeq49_SP.fasta
    Posted date:  Oct 17, 2011  1:42 PM
  Number of letters in database: 11,343,932
  Number of sequences in database:  24,897
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24897
Number of Hits to DB: 23,507,709
Number of extensions: 643877
Number of successful extensions: 3366
Number of sequences better than 1.0e-05: 7
Number of HSP's gapped: 3352
Number of HSP's successfully gapped: 7
Length of query: 347
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 247
Effective length of database: 8,854,232
Effective search space: 2186995304
Effective search space used: 2186995304
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)

Search to RefSeqHP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-007667
         (1041 letters)

Database: RefSeq49_HP.fasta 
           32,964 sequences; 18,297,164 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_001001563.1| mitochondrial import inner membrane transloc...   585   e-167
Alignment   gi|NP_005799.2| CTD small phosphatase-like protein isoform 2 [H...    82   8e-16
Alignment   gi|NP_001193807.1| carboxy-terminal domain RNA polymerase II po...    80   3e-15
Alignment   gi|NP_872580.1| carboxy-terminal domain RNA polymerase II polyp...    80   3e-15
Alignment   gi|NP_067021.1| carboxy-terminal domain RNA polymerase II polyp...    80   3e-15
Alignment   gi|NP_001008393.1| CTD small phosphatase-like protein isoform 1...    80   4e-15
Alignment   gi|NP_057480.2| CTD small phosphatase-like protein 2 [Homo sapi...    75   8e-14
Alignment   gi|NP_005721.3| carboxy-terminal domain RNA polymerase II polyp...    74   2e-13
Alignment   gi|NP_001193808.1| carboxy-terminal domain RNA polymerase II po...    70   4e-12
Alignment   gi|NP_001137247.1| CTD nuclear envelope phosphatase 1 [Homo sap...    63   5e-10

>ref|NP_001001563.1| mitochondrial import inner membrane translocase subunit TIM50 [Homo
            sapiens].
          Length = 456

 Score =  585 bits (1509), Expect = e-167
 Identities = 294/343 (85%), Positives = 300/343 (87%)
 Frame = +1

Query: 1    RVGGASWRQRKMAASAGLFLRLRSGLLQGARGLCARLATAPPRAPDQTAEIGSRAGTKVQ 180
            RVGGA+WRQRKMAASA +F RLRSGL  G+RGLC RLAT P RAPDQ AEIGSR  TK Q
Sbjct: 93   RVGGAAWRQRKMAASAAVFSRLRSGLRLGSRGLCTRLATPPRRAPDQAAEIGSRGSTKAQ 152

Query: 181  VQGPQQQRSSEGPSYAKKVXXXXXXXXXXXXTVSIVYIFGNNSVDENGAKIPDEFDNDPI 360
              GPQQQ  SEGPSYAKKV            TVS+VYIFGNN VDENGAKIPDEFDNDPI
Sbjct: 153  --GPQQQPGSEGPSYAKKVALWLAGLLGAGGTVSVVYIFGNNPVDENGAKIPDEFDNDPI 210

Query: 361  LVQQLRRTYKYFKDYRQMIIEPTSPCLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLAT 540
            LVQQLRRTYKYFKDYRQMIIEPTSPCLLPDPL+EPYYQPPYTLVLELTGVLLHPEWSLAT
Sbjct: 211  LVQQLRRTYKYFKDYRQMIIEPTSPCLLPDPLQEPYYQPPYTLVLELTGVLLHPEWSLAT 270

Query: 541  GWRFKKRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMD 720
            GWRFKKRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMD
Sbjct: 271  GWRFKKRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMD 330

Query: 721  GHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIA 900
            GHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIA
Sbjct: 331  GHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIA 390

Query: 901  LNGVEDVRTVLEHYALEEDPLEAFKXXXXXXXXXXXXXPAELS 1029
            LNGVEDVRTVLEHYALE+DPL AFK              AELS
Sbjct: 391  LNGVEDVRTVLEHYALEDDPLAAFKQRQSRLEQEEQQRLAELS 433


>ref|NP_005799.2| CTD small phosphatase-like protein isoform 2 [Homo sapiens].
          Length = 265

 Score = 82.0 bits (201), Expect = 8e-16
 Identities = 59/212 (27%), Positives = 99/212 (46%), Gaps = 32/212 (15%)
 Frame = +1

Query: 394 FKDYRQMIIEPTSPCLLPDPLRE---------PYYQPPYTL--------VLELTGVLLHP 522
           F+DY      P+SP +LP  + E          Y  P  T+        V++L   L+H 
Sbjct: 50  FRDYNVEAPPPSSPSVLPPLVEENGGLQKPPAKYLLPEVTVLDYGKKCVVIDLDETLVHS 109

Query: 523 EWSLATGWRF---------------KKRPGIETLFQQLAPLYEIVIFTSETGMTAFPLID 657
            +   +   F                KRP ++   Q++  L+E V+FT+     A P+ D
Sbjct: 110 SFKPISNADFIVPVEIDGTIHQVYVLKRPHVDEFLQRMGQLFECVLFTASLAKYADPVAD 169

Query: 658 SVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRP 837
            +D  G    RLFR++  +  G++VKD+S L R+ ++V++VD    ++   P N V ++ 
Sbjct: 170 LLDRWGVFRARLFRESCVFHRGNYVKDLSRLGRELSKVIIVDNSPASYIFHPENAVPVQS 229

Query: 838 WDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
           W  +  D  LLDL  F +   L+  +DV ++L
Sbjct: 230 WFDDMTDTELLDLIPFFE--GLSREDDVYSML 259


>ref|NP_001193807.1| carboxy-terminal domain RNA polymerase II polypeptide A small
           phosphatase 1 isoform 3 [Homo sapiens].
          Length = 260

 Score = 80.1 bits (196), Expect = 3e-15
 Identities = 51/158 (32%), Positives = 83/158 (52%)
 Frame = +1

Query: 460 EPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIETLFQQLAPLYEIVIFTSETGMT 639
           +P     + + +E+ GV+ H  + L       KRP ++   Q++  L+E V+FT+     
Sbjct: 106 KPVNNADFIIPVEIDGVV-HQVYVL-------KRPHVDEFLQRMGELFECVLFTASLAKY 157

Query: 640 AFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYN 819
           A P+ D +D  G    RLFR++  +  G++VKD+S L RD  RV+++D    ++   P N
Sbjct: 158 ADPVADLLDKWGAFRARLFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDN 217

Query: 820 GVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
            V +  W  N  D  L DL  F +   L+ V+DV +VL
Sbjct: 218 AVPVASWFDNMSDTELHDLLPFFE--QLSRVDDVYSVL 253


>ref|NP_872580.1| carboxy-terminal domain RNA polymerase II polypeptide A small
           phosphatase 1 isoform 2 [Homo sapiens].
          Length = 260

 Score = 80.1 bits (196), Expect = 3e-15
 Identities = 51/158 (32%), Positives = 83/158 (52%)
 Frame = +1

Query: 460 EPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIETLFQQLAPLYEIVIFTSETGMT 639
           +P     + + +E+ GV+ H  + L       KRP ++   Q++  L+E V+FT+     
Sbjct: 106 KPVNNADFIIPVEIDGVV-HQVYVL-------KRPHVDEFLQRMGELFECVLFTASLAKY 157

Query: 640 AFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYN 819
           A P+ D +D  G    RLFR++  +  G++VKD+S L RD  RV+++D    ++   P N
Sbjct: 158 ADPVADLLDKWGAFRARLFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDN 217

Query: 820 GVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
            V +  W  N  D  L DL  F +   L+ V+DV +VL
Sbjct: 218 AVPVASWFDNMSDTELHDLLPFFE--QLSRVDDVYSVL 253


>ref|NP_067021.1| carboxy-terminal domain RNA polymerase II polypeptide A small
           phosphatase 1 isoform 1 [Homo sapiens].
          Length = 261

 Score = 80.1 bits (196), Expect = 3e-15
 Identities = 51/158 (32%), Positives = 83/158 (52%)
 Frame = +1

Query: 460 EPYYQPPYTLVLELTGVLLHPEWSLATGWRFKKRPGIETLFQQLAPLYEIVIFTSETGMT 639
           +P     + + +E+ GV+ H  + L       KRP ++   Q++  L+E V+FT+     
Sbjct: 107 KPVNNADFIIPVEIDGVV-HQVYVL-------KRPHVDEFLQRMGELFECVLFTASLAKY 158

Query: 640 AFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYN 819
           A P+ D +D  G    RLFR++  +  G++VKD+S L RD  RV+++D    ++   P N
Sbjct: 159 ADPVADLLDKWGAFRARLFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDN 218

Query: 820 GVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
            V +  W  N  D  L DL  F +   L+ V+DV +VL
Sbjct: 219 AVPVASWFDNMSDTELHDLLPFFE--QLSRVDDVYSVL 254


>ref|NP_001008393.1| CTD small phosphatase-like protein isoform 1 [Homo sapiens].
          Length = 276

 Score = 79.7 bits (195), Expect = 4e-15
 Identities = 57/195 (29%), Positives = 97/195 (49%), Gaps = 17/195 (8%)
 Frame = +1

Query: 400 DYRQMIIEPTSPC--LLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRF------- 552
           D RQ+I  P+ P   LLP+     Y +    +V++L   L+H  +   +   F       
Sbjct: 80  DQRQVIPIPSPPAKYLLPEVTVLDYGKK--CVVIDLDETLVHSSFKPISNADFIVPVEID 137

Query: 553 --------KKRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDAT 708
                    KRP ++   Q++  L+E V+FT+     A P+ D +D  G    RLFR++ 
Sbjct: 138 GTIHQVYVLKRPHVDEFLQRMGQLFECVLFTASLAKYADPVADLLDRWGVFRARLFRESC 197

Query: 709 RYMDGHHVKDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL 888
            +  G++VKD+S L R+ ++V++VD    ++   P N V ++ W  +  D  LLDL  F 
Sbjct: 198 VFHRGNYVKDLSRLGRELSKVIIVDNSPASYIFHPENAVPVQSWFDDMTDTELLDLIPFF 257

Query: 889 KTIALNGVEDVRTVL 933
           +   L+  +DV ++L
Sbjct: 258 E--GLSREDDVYSML 270


>ref|NP_057480.2| CTD small phosphatase-like protein 2 [Homo sapiens].
          Length = 466

 Score = 75.5 bits (184), Expect = 8e-14
 Identities = 50/167 (29%), Positives = 89/167 (53%), Gaps = 17/167 (10%)
 Frame = +1

Query: 475 PPYTLVLELTGVLLH------PEWSLATGWRFKK---------RPGIETLFQQLAPLYEI 609
           P ++LVL+L   L+H       + +L     F+          RP      ++++ +YEI
Sbjct: 286 PEFSLVLDLDETLVHCSLNELEDAALTFPVLFQDVIYQVYVRLRPFFREFLERMSQMYEI 345

Query: 610 VIFTSETGMTAFPLIDSVDPHG-FISYRLFRDATRYMDGHHVKDISCLNRDPARVVVVDC 786
           ++FT+   + A  L++ +DP    + +RLFR+    + G+++KD++ L RD ++ +++D 
Sbjct: 346 ILFTASKKVYADKLLNILDPKKQLVRHRLFREHCVCVQGNYIKDLNILGRDLSKTIIIDN 405

Query: 787 KKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFL-KTIALNGVEDVR 924
             +AF  Q  NG+ +  W  + +D  LL L  FL K + LN  EDVR
Sbjct: 406 SPQAFAYQLSNGIPIESWFMDKNDNELLKLIPFLEKLVELN--EDVR 450


>ref|NP_005721.3| carboxy-terminal domain RNA polymerase II polypeptide A small
           phosphatase 2 [Homo sapiens].
          Length = 271

 Score = 74.3 bits (181), Expect = 2e-13
 Identities = 52/181 (28%), Positives = 85/181 (46%), Gaps = 15/181 (8%)
 Frame = +1

Query: 436 CLLPDPLREPYYQPPYTLVLELTGVLLHPEWSLATGWRF---------------KKRPGI 570
           CLLP+   E   Q    +V++L   L+H  +       F                KRP +
Sbjct: 89  CLLPEVTEED--QGRICVVIDLDETLVHSSFKPINNADFIVPIEIEGTTHQVYVLKRPYV 146

Query: 571 ETLFQQLAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCL 750
           +   +++  L+E V+FT+     A P+ D +D  G    RLFR++  +  G +VKD+S L
Sbjct: 147 DEFLRRMGELFECVLFTASLAKYADPVTDLLDRCGVFRARLFRESCVFHQGCYVKDLSRL 206

Query: 751 NRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTV 930
            RD  + +++D    ++   P N V ++ W  +  D  LL+L    +   L+G EDV T 
Sbjct: 207 GRDLRKTLILDNSPASYIFHPENAVPVQSWFDDMADTELLNLIPIFE--ELSGAEDVYTS 264

Query: 931 L 933
           L
Sbjct: 265 L 265


>ref|NP_001193808.1| carboxy-terminal domain RNA polymerase II polypeptide A small
           phosphatase 1 isoform 4 [Homo sapiens].
          Length = 120

 Score = 69.7 bits (169), Expect = 4e-12
 Identities = 41/115 (35%), Positives = 63/115 (54%)
 Frame = +1

Query: 589 LAPLYEIVIFTSETGMTAFPLIDSVDPHGFISYRLFRDATRYMDGHHVKDISCLNRDPAR 768
           +  L+E V+FT+     A P+ D +D  G    RLFR++  +  G++VKD+S L RD  R
Sbjct: 1   MGELFECVLFTASLAKYADPVADLLDKWGAFRARLFRESCVFHRGNYVKDLSRLGRDLRR 60

Query: 769 VVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGVEDVRTVL 933
           V+++D    ++   P N V +  W  N  D  L DL  F +   L+ V+DV +VL
Sbjct: 61  VLILDNSPASYVFHPDNAVPVASWFDNMSDTELHDLLPFFE--QLSRVDDVYSVL 113


>ref|NP_001137247.1| CTD nuclear envelope phosphatase 1 [Homo sapiens].
          Length = 244

 Score = 62.8 bits (151), Expect = 5e-10
 Identities = 36/127 (28%), Positives = 65/127 (51%), Gaps = 1/127 (0%)
 Frame = +1

Query: 556 KRPGIETLFQQLAPLYEIVIFTSETGMTAFPLIDSVD-PHGFISYRLFRDATRYMDGHHV 732
           KRP ++   + ++  YE+V+FT+   +    + D +D     +  R +R       G ++
Sbjct: 110 KRPHVDFFLEVVSQWYELVVFTASMEIYGSAVADKLDNSRSILKRRYYRQHCTLELGSYI 169

Query: 733 KDISCLNRDPARVVVVDCKKEAFRLQPYNGVALRPWDGNSDDRVLLDLSAFLKTIALNGV 912
           KD+S ++ D + +V++D    A+R  P N + ++ W  +  D  LL+L   L   AL   
Sbjct: 170 KDLSVVHSDLSSIVILDNSPGAYRSHPDNAIPIKSWFSDPSDTALLNLLPMLD--ALRFT 227

Query: 913 EDVRTVL 933
            DVR+VL
Sbjct: 228 ADVRSVL 234


  Database: RefSeq49_HP.fasta
    Posted date:  Oct 17, 2011  1:42 PM
  Number of letters in database: 18,297,164
  Number of sequences in database:  32,964
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 32964
Number of Hits to DB: 37,210,387
Number of extensions: 1006261
Number of successful extensions: 4696
Number of sequences better than 1.0e-05: 11
Number of HSP's gapped: 4667
Number of HSP's successfully gapped: 11
Length of query: 347
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 244
Effective length of database: 14,901,872
Effective search space: 3636056768
Effective search space used: 3636056768
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)

Search to Sscrofa10_2

BLASTN 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-007667
         (1041 letters)

Database: Sscrofa_10.2.fasta 
           4582 sequences; 2,808,509,378 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Sscrofa_Chr06                                                         319   2e-84

>Sscrofa_Chr06 
||          Length = 157765593

 Score =  319 bits (161), Expect = 2e-84
 Identities = 161/161 (100%)
 Strand = Plus / Minus

                                                                            
Query: 139      cagactgcagagatcgggagccgagcaggcactaaggtccaggtccaggggccacagcag 198
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43831969 cagactgcagagatcgggagccgagcaggcactaaggtccaggtccaggggccacagcag 43831910

                                                                            
Query: 199      cagaggagctcggagggtcccagctatgccaaaaaagtcgcactctggcttgctgggctg 258
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43831909 cagaggagctcggagggtcccagctatgccaaaaaagtcgcactctggcttgctgggctg 43831850

                                                         
Query: 259      ctcggggctggtgggaccgtgagcatcgtctatatcttcgg 299
                |||||||||||||||||||||||||||||||||||||||||
Sbjct: 43831849 ctcggggctggtgggaccgtgagcatcgtctatatcttcgg 43831809



 Score =  315 bits (159), Expect = 3e-83
 Identities = 159/159 (100%)
 Strand = Plus / Minus

                                                                            
Query: 734      aggacatttcatgtctgaatcgggacccagcccgggtggtagtcgtggactgcaagaaag 793
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43827672 aggacatttcatgtctgaatcgggacccagcccgggtggtagtcgtggactgcaagaaag 43827613

                                                                            
Query: 794      aagccttccgcctacagccctacaacggcgtcgccctgcggccctgggatggcaactccg 853
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43827612 aagccttccgcctacagccctacaacggcgtcgccctgcggccctgggatggcaactccg 43827553

                                                       
Query: 854      acgaccgagtcttattggacctgtctgccttcctcaaga 892
                |||||||||||||||||||||||||||||||||||||||
Sbjct: 43827552 acgaccgagtcttattggacctgtctgccttcctcaaga 43827514



 Score =  266 bits (134), Expect = 2e-68
 Identities = 141/142 (99%), Gaps = 1/142 (0%)
 Strand = Plus / Minus

                                                                            
Query: 1        cgagtgggcggggcctcgtggcgtcagcgcaagatggcggcctcggcgggg-ctgttctt 59
                ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct: 43832989 cgagtgggcggggcctcgtggcgtcagcgcaagatggcggcctcggcgggggctgttctt 43832930

                                                                            
Query: 60       gcggttgcggagcgggctcttgcaaggcgcgcgggggctgtgcgcgaggctcgcgacggc 119
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43832929 gcggttgcggagcgggctcttgcaaggcgcgcgggggctgtgcgcgaggctcgcgacggc 43832870

                                      
Query: 120      gcctccccgggccccagaccag 141
                ||||||||||||||||||||||
Sbjct: 43832869 gcctccccgggccccagaccag 43832848



 Score =  244 bits (123), Expect = 8e-62
 Identities = 123/123 (100%)
 Strand = Plus / Minus

                                                                            
Query: 409      cagatgatcatcgagcccaccagcccctgccttctcccagaccccctgcgggagccatac 468
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43829438 cagatgatcatcgagcccaccagcccctgccttctcccagaccccctgcgggagccatac 43829379

                                                                            
Query: 469      taccagccgccgtacacactggtcctggagctcacgggcgtcctcttgcaccctgagtgg 528
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43829378 taccagccgccgtacacactggtcctggagctcacgggcgtcctcttgcaccctgagtgg 43829319

                   
Query: 529      tcg 531
                |||
Sbjct: 43829318 tcg 43829316



 Score =  210 bits (106), Expect = 1e-51
 Identities = 106/106 (100%)
 Strand = Plus / Minus

                                                                            
Query: 531      gctggccactggctggaggtttaagaagcgtccaggcatcgagaccttatttcagcagct 590
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43828902 gctggccactggctggaggtttaagaagcgtccaggcatcgagaccttatttcagcagct 43828843

                                                              
Query: 591      cgcccctttatacgaaatcgtcatctttacgtcggagactggcatg 636
                ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43828842 cgcccctttatacgaaatcgtcatctttacgtcggagactggcatg 43828797



 Score =  206 bits (104), Expect = 2e-50
 Identities = 107/108 (99%)
 Strand = Plus / Minus

                                                                            
Query: 893      ccattgctttgaacggtgtggaggatgtccgaaccgtgctggagcactacgccctggagg 952
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43826955 ccattgctttgaacggtgtggaggatgtccgaaccgtgctggagcactacgccctggagg 43826896

                                                                
Query: 953      aggaccctctggaggccttcaaacagcggcagagccggctagagcagg 1000
                |||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 43826895 aggaccctctggaggctttcaaacagcggcagagccggctagagcagg 43826848



 Score =  200 bits (101), Expect = 1e-48
 Identities = 101/101 (100%)
 Strand = Plus / Minus

                                                                            
Query: 636      gactgcgtttcccctcatcgacagcgtggacccccacggcttcatctcctaccgcctgtt 695
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43828716 gactgcgtttcccctcatcgacagcgtggacccccacggcttcatctcctaccgcctgtt 43828657

                                                         
Query: 696      ccgggatgccacgagatacatggatggacaccacgttaagg 736
                |||||||||||||||||||||||||||||||||||||||||
Sbjct: 43828656 ccgggatgccacgagatacatggatggacaccacgttaagg 43828616



 Score =  119 bits (60), Expect = 3e-24
 Identities = 60/60 (100%)
 Strand = Plus / Minus

                                                                            
Query: 352      gatccaattctggtacagcagttgcgccggacatacaaatatttcaaggattacagacag 411
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43829585 gatccaattctggtacagcagttgcgccggacatacaaatatttcaaggattacagacag 43829526



 Score = 65.9 bits (33), Expect = 4e-08
 Identities = 33/33 (100%)
 Strand = Plus / Minus

                                                 
Query: 298      ggaaacaactctgtggatgaaaatggtgccaag 330
                |||||||||||||||||||||||||||||||||
Sbjct: 43831296 ggaaacaactctgtggatgaaaatggtgccaag 43831264



 Score = 60.0 bits (30), Expect = 3e-06
 Identities = 43/46 (93%), Gaps = 1/46 (2%)
 Strand = Plus / Minus

                                                              
Query: 997      caggaggaacagcagcggccggctgagctctcc-agtctagcaagc 1041
                ||||||||||||||||| | ||||||||||||| ||||||||||||
Sbjct: 43825982 caggaggaacagcagcgcctggctgagctctccaagtctagcaagc 43825937


  Database: Sscrofa_10.2.fasta
    Posted date:  Nov 16, 2011 10:34 AM
  Number of letters in database: 2,808,509,378
  Number of sequences in database:  4582
  
Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.37    0.711     1.31 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Sequences: 4582
Number of Hits to DB: 23,447,456
Number of extensions: 153
Number of successful extensions: 153
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 152
Number of HSP's successfully gapped: 10
Length of query: 1041
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1020
Effective length of database: 2,808,413,156
Effective search space: 2864581419120
Effective search space used: 2864581419120
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 30 (60.0 bits)