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-000732
(1530 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_001029907.1| CD74 antigen [Bos taurus]. 315 7e-86
Alignment gi|NP_001094625.1| nidogen-1 [Bos taurus]. 64 4e-10
Alignment gi|NP_001068968.1| testican-1 [Bos taurus]. 63 6e-10
Alignment gi|NP_001094585.1| testican-2 [Bos taurus]. 62 1e-09
Alignment gi|NP_001095535.1| nidogen-2 [Bos taurus]. 52 2e-06
Alignment gi|NP_776308.1| thyroglobulin precursor [Bos taurus]. 49 9e-06
>ref|NP_001029907.1| CD74 antigen [Bos taurus].
Length = 204
Score = 315 bits (807), Expect = 7e-86
Identities = 155/190 (81%), Positives = 166/190 (87%)
Frame = +2
Query: 92 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 271
MEDQRDLISNHEQLPMLGQRPGA ESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG
Sbjct: 1 MEDQRDLISNHEQLPMLGQRPGAQESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 60
Query: 272 RLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEGPEPMRNATKYGNMT 451
RLDKLTVTSQNLQLE ++ PMLM+ALPM GPEPM+NATKYGNMT
Sbjct: 61 RLDKLTVTSQNLQLENLRMKLPKPAKPMSQMRMATPMLMRALPMAGPEPMKNATKYGNMT 120
Query: 452 QDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKNSL 631
QDHVMHLLLK+DPL VYP+LKGSLPENLKHLK++MDG++WKLFE+WL QWLLFEMSKNSL
Sbjct: 121 QDHVMHLLLKADPLKVYPQLKGSLPENLKHLKDSMDGLDWKLFESWLHQWLLFEMSKNSL 180
Query: 632 EETPFEVPPK 661
EE PFE PPK
Sbjct: 181 EEKPFEGPPK 190
>ref|NP_001094625.1| nidogen-1 [Bos taurus].
Length = 1241
Score = 63.9 bits (154), Expect = 4e-10
Identities = 32/81 (39%), Positives = 44/81 (54%), Gaps = 9/81 (11%)
Frame = +2
Query: 620 KNSLEETPFEVPPKVL--TKCQEEVSRVPAVH-------PGMFRPKCDEDGNYMPLQCYG 772
K+ + F P V+ T+CQ E + PG+F P+CDE G Y+P QC+
Sbjct: 826 KSGYQGDGFHCVPGVVEKTRCQHEREHILGTADSSRPRPPGLFVPECDEHGQYVPTQCHS 885
Query: 773 SIGFCWCVFPNGTEVPHTRSR 835
S G+CWCV +G EV TR+R
Sbjct: 886 STGYCWCVDRDGREVQGTRTR 906
>ref|NP_001068968.1| testican-1 [Bos taurus].
Length = 442
Score = 63.2 bits (152), Expect = 6e-10
Identities = 35/93 (37%), Positives = 49/93 (52%), Gaps = 13/93 (13%)
Frame = +2
Query: 674 CQEEVSRVPAVHPGM-----FRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRG 838
CQ E++R+ + G F P+C+E+G Y QC+GS G CWCV G E+ +R +G
Sbjct: 316 CQNEMNRIQKLSKGKSLLGAFIPRCNEEGYYKATQCHGSTGQCWCVDKYGNELAGSRKQG 375
Query: 839 RHSCSDPLETE-DLSSGLGVT-------KQDLG 913
+C + ET D SG V +QDLG
Sbjct: 376 AVNCEEEQETSGDFGSGGSVVLLDDLEDEQDLG 408
>ref|NP_001094585.1| testican-2 [Bos taurus].
Length = 424
Score = 62.0 bits (149), Expect = 1e-09
Identities = 32/83 (38%), Positives = 43/83 (51%), Gaps = 1/83 (1%)
Frame = +2
Query: 647 EVPPKVLTKCQEEVSRVPAVHPGMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHT 826
E PP + + ++ PG+F P CDEDG Y +QC S G CWCV G E+ T
Sbjct: 309 EKPPCLAELERIQIQEAAKKKPGIFIPSCDEDGYYRKMQCDQSSGDCWCVDQLGLELTGT 368
Query: 827 RSRGRHSCSDPLE-TEDLSSGLG 892
R+ G C D + + D SG+G
Sbjct: 369 RTHGSPDCDDIVGFSGDFGSGVG 391
>ref|NP_001095535.1| nidogen-2 [Bos taurus].
Length = 1305
Score = 51.6 bits (122), Expect = 2e-06
Identities = 20/37 (54%), Positives = 27/37 (72%)
Frame = +2
Query: 725 PKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSR 835
P+CD+ G++ PLQC+G FCWCV +G EV TRS+
Sbjct: 972 PQCDDLGHFTPLQCHGKSDFCWCVDQDGREVQGTRSQ 1008
>ref|NP_776308.1| thyroglobulin precursor [Bos taurus].
Length = 2769
Score = 49.3 bits (116), Expect = 9e-06
Identities = 30/80 (37%), Positives = 39/80 (48%), Gaps = 9/80 (11%)
Frame = +2
Query: 674 CQEEVSRVPA--VHPGMFRPKCD-EDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRGRH 844
C+ S VP+ PG + P C EDG + P+QC + G CWCV +G EVP TR G
Sbjct: 1149 CEVLQSGVPSRRTSPG-YSPACRAEDGGFSPVQCDPAQGSCWCVLGSGEEVPGTRVAGSQ 1207
Query: 845 ------SCSDPLETEDLSSG 886
C P D++ G
Sbjct: 1208 PACESPQCPLPFSVADVAGG 1227
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: 58,939,535
Number of extensions: 1889227
Number of successful extensions: 11732
Number of sequences better than 1.0e-05: 6
Number of HSP's gapped: 11556
Number of HSP's successfully gapped: 6
Length of query: 510
Length of database: 17,681,374
Length adjustment: 107
Effective length of query: 403
Effective length of database: 14,140,958
Effective search space: 5698806074
Effective search space used: 5698806074
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: 36 (18.5 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-000732
(1530 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_536468.2| PREDICTED: similar to HLA class II histocompati... 437 e-122
Alignment gi|XP_531914.2| PREDICTED: similar to Testican-1 precursor (SPO... 64 5e-10
Alignment gi|XP_537445.2| PREDICTED: similar to nidogen 2 [Canis familiar... 63 7e-10
Alignment gi|XP_546155.2| PREDICTED: similar to Testican-2 precursor (SPA... 63 9e-10
Alignment gi|XP_850525.1| PREDICTED: similar to Testican-2 precursor (SPA... 63 9e-10
Alignment gi|XP_546076.2| PREDICTED: similar to Nidogen precursor (Entact... 62 1e-09
Alignment gi|XP_856536.1| PREDICTED: similar to Nidogen precursor (Entact... 62 1e-09
Alignment gi|XP_539793.2| PREDICTED: similar to Testican-3 precursor (SPA... 59 1e-08
Alignment gi|NP_001171274.1| SPARC related modular calcium binding 2 [Can... 50 6e-06
Alignment gi|XP_537495.2| PREDICTED: similar to secreted modular calcium-... 50 6e-06
>ref|XP_536468.2| PREDICTED: similar to HLA class II histocompatibility antigen,
gamma chain (HLA-DR antigens associated invariant chain)
(Ia antigen-associated invariant chain) (Ii) (p33) (CD74
antigen) [Canis familiaris].
Length = 272
Score = 437 bits (1124), Expect = e-122
Identities = 210/272 (77%), Positives = 234/272 (86%), Gaps = 2/272 (0%)
Frame = +2
Query: 92 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 271
MEDQRDLISNHEQLP+LGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG
Sbjct: 1 MEDQRDLISNHEQLPILGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 60
Query: 272 RLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEG-PE-PMRNATKYGN 445
RLDKLTVTSQNLQLE V+ PM+MQALP++ P+ P +NAT+YGN
Sbjct: 61 RLDKLTVTSQNLQLESLRMKLPKPPKPLSKMRVATPMMMQALPIQSLPQGPTQNATEYGN 120
Query: 446 MTQDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKN 625
MTQDHVMHLLL++DPL VYPKLKGS PENLKHLKNTM+ ++WK+FENW+ QWLLFEMSKN
Sbjct: 121 MTQDHVMHLLLEADPLKVYPKLKGSFPENLKHLKNTMETLDWKVFENWMYQWLLFEMSKN 180
Query: 626 SLEETPFEVPPKVLTKCQEEVSRVPAVHPGMFRPKCDEDGNYMPLQCYGSIGFCWCVFPN 805
SLE+ EVP K LTKCQEEVSR+P VHPGMFRP+CDE+GNY PLQCYGS G+CWCVFPN
Sbjct: 181 SLEKKSTEVPLKALTKCQEEVSRIPDVHPGMFRPQCDENGNYKPLQCYGSTGYCWCVFPN 240
Query: 806 GTEVPHTRSRGRHSCSDPLETEDLSSGLGVTK 901
GTEVPHTRS G H+CS+PL+ EDLSSGLG+ K
Sbjct: 241 GTEVPHTRSHGHHNCSEPLDMEDLSSGLGMAK 272
>ref|XP_531914.2| PREDICTED: similar to Testican-1 precursor (SPOCK protein) [Canis
familiaris].
Length = 418
Score = 63.5 bits (153), Expect = 5e-10
Identities = 33/84 (39%), Positives = 45/84 (53%), Gaps = 6/84 (7%)
Frame = +2
Query: 674 CQEEVSRVPAVHPGM-----FRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRG 838
CQ E++R+ + G F P+C+E+G Y QC+GS G CWCV G E+ +R +G
Sbjct: 292 CQNEMNRIQKLSKGKSLLGAFIPRCNEEGYYKATQCHGSTGQCWCVDKYGNELAGSRKQG 351
Query: 839 RHSCSDPLETE-DLSSGLGVTKQD 907
SC + ET D SG V D
Sbjct: 352 TVSCEEEQETSGDFGSGGSVVLLD 375
>ref|XP_537445.2| PREDICTED: similar to nidogen 2 [Canis familiaris].
Length = 1783
Score = 63.2 bits (152), Expect = 7e-10
Identities = 28/64 (43%), Positives = 41/64 (64%), Gaps = 4/64 (6%)
Frame = +2
Query: 653 PPKVLTKCQEEVSRVPA--VHPG--MFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVP 820
P L C+++ A +PG + P+CD+ G+++PLQC+ S GFCWCV P+G EVP
Sbjct: 1342 PASGLKPCEQQQHHAHAQQAYPGSQLHIPQCDDQGHFLPLQCHSSTGFCWCVDPDGHEVP 1401
Query: 821 HTRS 832
TR+
Sbjct: 1402 GTRT 1405
Score = 52.4 bits (124), Expect = 1e-06
Identities = 20/37 (54%), Positives = 28/37 (75%)
Frame = +2
Query: 725 PKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSR 835
P+CD+ G+++PLQC+G FCWCV +G EV TRS+
Sbjct: 1449 PQCDDLGHFIPLQCHGKSDFCWCVDQDGREVQGTRSQ 1485
>ref|XP_546155.2| PREDICTED: similar to Testican-2 precursor (SPARC/osteonectin,
CWCV, and Kazal-like domains proteoglycan 2) isoform 1
[Canis familiaris].
Length = 421
Score = 62.8 bits (151), Expect = 9e-10
Identities = 33/83 (39%), Positives = 43/83 (51%), Gaps = 1/83 (1%)
Frame = +2
Query: 647 EVPPKVLTKCQEEVSRVPAVHPGMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHT 826
E PP + + ++ PG+F P CDEDG Y LQC S G CWCV G E+ T
Sbjct: 306 EKPPCLAELERIQIQEASKKKPGIFIPSCDEDGYYRKLQCDQSSGDCWCVDQLGLELTGT 365
Query: 827 RSRGRHSCSDPLE-TEDLSSGLG 892
R+ G C D + + D SG+G
Sbjct: 366 RTHGSPDCDDIVGFSGDFGSGVG 388
>ref|XP_850525.1| PREDICTED: similar to Testican-2 precursor (SPARC/osteonectin,
CWCV, and Kazal-like domains proteoglycan 2) isoform 2
[Canis familiaris].
Length = 424
Score = 62.8 bits (151), Expect = 9e-10
Identities = 33/83 (39%), Positives = 43/83 (51%), Gaps = 1/83 (1%)
Frame = +2
Query: 647 EVPPKVLTKCQEEVSRVPAVHPGMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHT 826
E PP + + ++ PG+F P CDEDG Y LQC S G CWCV G E+ T
Sbjct: 309 EKPPCLAELERIQIQEASKKKPGIFIPSCDEDGYYRKLQCDQSSGDCWCVDQLGLELTGT 368
Query: 827 RSRGRHSCSDPLE-TEDLSSGLG 892
R+ G C D + + D SG+G
Sbjct: 369 RTHGSPDCDDIVGFSGDFGSGVG 391
>ref|XP_546076.2| PREDICTED: similar to Nidogen precursor (Entactin) isoform 1 [Canis
familiaris].
Length = 1244
Score = 62.0 bits (149), Expect = 1e-09
Identities = 25/44 (56%), Positives = 32/44 (72%)
Frame = +2
Query: 704 VHPGMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSR 835
V PG+F P+CDE G+Y P QC+GS G CWCV +G E+ TR+R
Sbjct: 866 VMPGLFVPECDEHGHYTPTQCHGSTGHCWCVDRDGRELEGTRTR 909
>ref|XP_856536.1| PREDICTED: similar to Nidogen precursor (Entactin) isoform 3 [Canis
familiaris].
Length = 1111
Score = 62.0 bits (149), Expect = 1e-09
Identities = 25/44 (56%), Positives = 32/44 (72%)
Frame = +2
Query: 704 VHPGMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSR 835
V PG+F P+CDE G+Y P QC+GS G CWCV +G E+ TR+R
Sbjct: 733 VMPGLFVPECDEHGHYTPTQCHGSTGHCWCVDRDGRELEGTRTR 776
>ref|XP_539793.2| PREDICTED: similar to Testican-3 precursor (SPARC/osteonectin,
CWCV, and Kazal-like domains proteoglycan 3) [Canis
familiaris].
Length = 443
Score = 58.9 bits (141), Expect = 1e-08
Identities = 31/77 (40%), Positives = 41/77 (53%), Gaps = 6/77 (7%)
Frame = +2
Query: 674 CQEEVSRVPAVHP-----GMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRG 838
CQ E+S + G + P CDEDG Y P QC+G++G CWCV G EV +R G
Sbjct: 324 CQTELSNIQKRQGVKKLLGQYVPLCDEDGYYKPTQCHGTLGQCWCVDRYGNEVRGSRPSG 383
Query: 839 RHSCSDPLE-TEDLSSG 886
C+ E + D +SG
Sbjct: 384 VPDCAIDFEISGDFASG 400
>ref|NP_001171274.1| SPARC related modular calcium binding 2 [Canis lupus familiaris].
Length = 436
Score = 50.1 bits (118), Expect = 6e-06
Identities = 18/37 (48%), Positives = 25/37 (67%)
Frame = +2
Query: 716 MFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHT 826
+F P+C++DG Y +QC+ G+CWCV PNG V T
Sbjct: 108 VFIPECNDDGTYSQVQCHSYTGYCWCVTPNGRPVSGT 144
>ref|XP_537495.2| PREDICTED: similar to secreted modular calcium-binding protein 1
isoform 1 [Canis familiaris].
Length = 435
Score = 50.1 bits (118), Expect = 6e-06
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 1/65 (1%)
Frame = +2
Query: 716 MFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRGRHS-CSDPLETEDLSSGLG 892
+F P+C EDG++ +QC+ G+CWCV P+G + + + + CS + + LS G
Sbjct: 113 VFVPECSEDGSFTQVQCHTYTGYCWCVTPDGKPISGSSVQNKTPVCSGSVTDKPLSQGNS 172
Query: 893 VTKQD 907
K D
Sbjct: 173 GRKDD 177
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: 60,886,071
Number of extensions: 1866263
Number of successful extensions: 12427
Number of sequences better than 1.0e-05: 11
Number of HSP's gapped: 12244
Number of HSP's successfully gapped: 12
Length of query: 510
Length of database: 18,874,504
Length adjustment: 107
Effective length of query: 403
Effective length of database: 15,307,552
Effective search space: 6168943456
Effective search space used: 6168943456
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: 36 (18.5 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-000732
(1530 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_001020330.1| HLA class II histocompatibility antigen gamm... 437 e-122
Alignment gi|NP_004346.1| HLA class II histocompatibility antigen gamma c... 278 1e-74
Alignment gi|NP_001020329.1| HLA class II histocompatibility antigen gamm... 187 2e-47
Alignment gi|NP_031387.3| nidogen-2 precursor [Homo sapiens]. 68 3e-11
Alignment gi|NP_004589.1| testican-1 precursor [Homo sapiens]. 64 5e-10
Alignment gi|NP_002499.2| nidogen-1 precursor [Homo sapiens]. 63 8e-10
Alignment gi|NP_055582.1| testican-2 isoform 2 [Homo sapiens]. 62 1e-09
Alignment gi|NP_001191285.1| testican-3 isoform 7 [Homo sapiens]. 60 4e-09
Alignment gi|NP_001035249.1| testican-3 isoform 1 [Homo sapiens]. 60 4e-09
Alignment gi|NP_058646.2| testican-3 isoform 2 [Homo sapiens]. 60 4e-09
>ref|NP_001020330.1| HLA class II histocompatibility antigen gamma chain isoform a [Homo
sapiens].
Length = 296
Score = 437 bits (1125), Expect = e-122
Identities = 209/282 (74%), Positives = 238/282 (84%), Gaps = 2/282 (0%)
Frame = +2
Query: 80 QARTMEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLY 259
Q M+DQRDLISN+EQLPMLG+RPGAPESKCSRGALYTGFS+LV LLLAGQATTAYFLY
Sbjct: 13 QKPVMDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLLLAGQATTAYFLY 72
Query: 260 QQQGRLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEG-PE-PMRNAT 433
QQQGRLDKLTVTSQNLQLE ++ P+LMQALPM P+ PM+NAT
Sbjct: 73 QQQGRLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPMGALPQGPMQNAT 132
Query: 434 KYGNMTQDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFE 613
KYGNMT+DHVMHLL +DPL VYP LKGS PENL+HLKNTM+ ++WK+FE+W+ WLLFE
Sbjct: 133 KYGNMTEDHVMHLLQNADPLKVYPPLKGSFPENLRHLKNTMETIDWKVFESWMHHWLLFE 192
Query: 614 MSKNSLEETPFEVPPKVLTKCQEEVSRVPAVHPGMFRPKCDEDGNYMPLQCYGSIGFCWC 793
MS++SLE+ P + PPKVLTKCQEEVS +PAVHPG FRPKCDE+GNY+PLQCYGSIG+CWC
Sbjct: 193 MSRHSLEQKPTDAPPKVLTKCQEEVSHIPAVHPGSFRPKCDENGNYLPLQCYGSIGYCWC 252
Query: 794 VFPNGTEVPHTRSRGRHSCSDPLETEDLSSGLGVTKQDLGQV 919
VFPNGTEVP+TRSRG H+CS+ LE ED SSGLGVTKQDLG V
Sbjct: 253 VFPNGTEVPNTRSRGHHNCSESLELEDPSSGLGVTKQDLGPV 294
>ref|NP_004346.1| HLA class II histocompatibility antigen gamma chain isoform b [Homo
sapiens].
Length = 232
Score = 278 bits (711), Expect = 1e-74
Identities = 137/196 (69%), Positives = 159/196 (81%), Gaps = 2/196 (1%)
Frame = +2
Query: 80 QARTMEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLY 259
Q M+DQRDLISN+EQLPMLG+RPGAPESKCSRGALYTGFS+LV LLLAGQATTAYFLY
Sbjct: 13 QKPVMDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLLLAGQATTAYFLY 72
Query: 260 QQQGRLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEG-PE-PMRNAT 433
QQQGRLDKLTVTSQNLQLE ++ P+LMQALPM P+ PM+NAT
Sbjct: 73 QQQGRLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPMGALPQGPMQNAT 132
Query: 434 KYGNMTQDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFE 613
KYGNMT+DHVMHLL +DPL VYP LKGS PENL+HLKNTM+ ++WK+FE+W+ WLLFE
Sbjct: 133 KYGNMTEDHVMHLLQNADPLKVYPPLKGSFPENLRHLKNTMETIDWKVFESWMHHWLLFE 192
Query: 614 MSKNSLEETPFEVPPK 661
MS++SLE+ P + PPK
Sbjct: 193 MSRHSLEQKPTDAPPK 208
>ref|NP_001020329.1| HLA class II histocompatibility antigen gamma chain isoform c [Homo
sapiens].
Length = 160
Score = 187 bits (476), Expect = 2e-47
Identities = 98/134 (73%), Positives = 108/134 (80%), Gaps = 2/134 (1%)
Frame = +2
Query: 80 QARTMEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLY 259
Q M+DQRDLISN+EQLPMLG+RPGAPESKCSRGALYTGFS+LV LLLAGQATTAYFLY
Sbjct: 13 QKPVMDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLLLAGQATTAYFLY 72
Query: 260 QQQGRLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEG-PE-PMRNAT 433
QQQGRLDKLTVTSQNLQLE ++ P+LMQALPM P+ PM+NAT
Sbjct: 73 QQQGRLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPMGALPQGPMQNAT 132
Query: 434 KYGNMTQDHVMHLL 475
KYGNMT+DHVMHLL
Sbjct: 133 KYGNMTEDHVMHLL 146
>ref|NP_031387.3| nidogen-2 precursor [Homo sapiens].
Length = 1375
Score = 67.8 bits (164), Expect = 3e-11
Identities = 30/60 (50%), Positives = 41/60 (68%), Gaps = 4/60 (6%)
Frame = +2
Query: 665 LTKCQEEVSRVPA--VHPG--MFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRS 832
LT C+++ A +PG P+CDE GN++PLQC+GS GFCWCV P+G EVP T++
Sbjct: 937 LTPCEQQQRHAQAQYAYPGARFHIPQCDEQGNFLPLQCHGSTGFCWCVDPDGHEVPGTQT 996
Score = 54.3 bits (129), Expect = 3e-07
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 2/67 (2%)
Frame = +2
Query: 641 PFEVPPKVLTKCQEEVSRVPAVHP--GMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTE 814
P + PP + + +E + P + P+CD+ G+++PLQC+G FCWCV +G E
Sbjct: 1011 PTQRPPTICERWRENLLEHYGGTPRDDQYVPQCDDLGHFIPLQCHGKSDFCWCVDKDGRE 1070
Query: 815 VPHTRSR 835
V TRS+
Sbjct: 1071 VQGTRSQ 1077
>ref|NP_004589.1| testican-1 precursor [Homo sapiens].
Length = 439
Score = 63.5 bits (153), Expect = 5e-10
Identities = 33/84 (39%), Positives = 45/84 (53%), Gaps = 6/84 (7%)
Frame = +2
Query: 674 CQEEVSRVPAVHPGM-----FRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRG 838
CQ E++R+ + G F P+C+E+G Y QC+GS G CWCV G E+ +R +G
Sbjct: 313 CQNEMNRIQKLSKGKSLLGAFIPRCNEEGYYKATQCHGSTGQCWCVDKYGNELAGSRKQG 372
Query: 839 RHSCSDPLETE-DLSSGLGVTKQD 907
SC + ET D SG V D
Sbjct: 373 AVSCEEEQETSGDFGSGGSVVLLD 396
>ref|NP_002499.2| nidogen-1 precursor [Homo sapiens].
Length = 1247
Score = 62.8 bits (151), Expect = 8e-10
Identities = 28/66 (42%), Positives = 38/66 (57%), Gaps = 10/66 (15%)
Frame = +2
Query: 668 TKCQEEVSRVPA----------VHPGMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEV 817
T+CQ E + + PG+F P+CD G+Y P QC+GS G+CWCV +G EV
Sbjct: 847 TRCQHEREHILGAAGATDPQRPIPPGLFVPECDAHGHYAPTQCHGSTGYCWCVDRDGREV 906
Query: 818 PHTRSR 835
TR+R
Sbjct: 907 EGTRTR 912
>ref|NP_055582.1| testican-2 isoform 2 [Homo sapiens].
Length = 424
Score = 62.0 bits (149), Expect = 1e-09
Identities = 32/83 (38%), Positives = 43/83 (51%), Gaps = 1/83 (1%)
Frame = +2
Query: 647 EVPPKVLTKCQEEVSRVPAVHPGMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHT 826
E PP + + ++ PG+F P CDEDG Y +QC S G CWCV G E+ T
Sbjct: 309 EKPPCLAELERIQIQEAAKKKPGIFIPSCDEDGYYRKMQCDQSSGDCWCVDQLGLELTGT 368
Query: 827 RSRGRHSCSDPLE-TEDLSSGLG 892
R+ G C D + + D SG+G
Sbjct: 369 RTHGSPDCDDIVGFSGDFGSGVG 391
>ref|NP_001191285.1| testican-3 isoform 7 [Homo sapiens].
Length = 393
Score = 60.5 bits (145), Expect = 4e-09
Identities = 32/77 (41%), Positives = 41/77 (53%), Gaps = 6/77 (7%)
Frame = +2
Query: 674 CQEEVSRVPAVHP-----GMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRG 838
CQ E+S + G + P CDEDG Y P QC+GS+G CWCV G EV +R G
Sbjct: 274 CQTELSNIQKRQGVKKLLGQYIPLCDEDGYYKPTQCHGSVGQCWCVDRYGNEVMGSRING 333
Query: 839 RHSCSDPLE-TEDLSSG 886
C+ E + D +SG
Sbjct: 334 VADCAIDFEISGDFASG 350
>ref|NP_001035249.1| testican-3 isoform 1 [Homo sapiens].
Length = 433
Score = 60.5 bits (145), Expect = 4e-09
Identities = 32/77 (41%), Positives = 41/77 (53%), Gaps = 6/77 (7%)
Frame = +2
Query: 674 CQEEVSRVPAVHP-----GMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRG 838
CQ E+S + G + P CDEDG Y P QC+GS+G CWCV G EV +R G
Sbjct: 314 CQTELSNIQKRQGVKKLLGQYIPLCDEDGYYKPTQCHGSVGQCWCVDRYGNEVMGSRING 373
Query: 839 RHSCSDPLE-TEDLSSG 886
C+ E + D +SG
Sbjct: 374 VADCAIDFEISGDFASG 390
>ref|NP_058646.2| testican-3 isoform 2 [Homo sapiens].
Length = 436
Score = 60.5 bits (145), Expect = 4e-09
Identities = 32/77 (41%), Positives = 41/77 (53%), Gaps = 6/77 (7%)
Frame = +2
Query: 674 CQEEVSRVPAVHP-----GMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRG 838
CQ E+S + G + P CDEDG Y P QC+GS+G CWCV G EV +R G
Sbjct: 317 CQTELSNIQKRQGVKKLLGQYIPLCDEDGYYKPTQCHGSVGQCWCVDRYGNEVMGSRING 376
Query: 839 RHSCSDPLE-TEDLSSG 886
C+ E + D +SG
Sbjct: 377 VADCAIDFEISGDFASG 393
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: 59,543,971
Number of extensions: 1804317
Number of successful extensions: 11120
Number of sequences better than 1.0e-05: 18
Number of HSP's gapped: 10948
Number of HSP's successfully gapped: 19
Length of query: 510
Length of database: 18,297,164
Length adjustment: 107
Effective length of query: 403
Effective length of database: 14,770,016
Effective search space: 5952316448
Effective search space used: 5952316448
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: 36 (18.5 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-000732
(1530 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_001036070.1| H-2 class II histocompatibility antigen gamm... 422 e-118
Alignment gi|NP_034675.1| H-2 class II histocompatibility antigen gamma c... 260 2e-69
Alignment gi|NP_001159938.1| testican-1 isoform 2 precursor [Mus musculus]. 64 4e-10
Alignment gi|NP_001159935.1| testican-1 isoform 3 precursor [Mus musculus]. 64 4e-10
Alignment gi|NP_033288.2| testican-1 isoform 1 precursor [Mus musculus]. 64 4e-10
Alignment gi|NP_032721.2| nidogen-2 precursor [Mus musculus]. 63 5e-10
Alignment gi|NP_443720.1| testican-2 precursor [Mus musculus]. 62 2e-09
Alignment gi|NP_076178.1| testican-3 precursor [Mus musculus]. 59 8e-09
Alignment gi|NP_035047.2| nidogen-1 precursor [Mus musculus]. 55 2e-07
Alignment gi|NP_071711.2| SPARC-related modular calcium-binding protein 1... 53 7e-07
>ref|NP_001036070.1| H-2 class II histocompatibility antigen gamma chain isoform 1 [Mus
musculus].
Length = 279
Score = 422 bits (1085), Expect = e-118
Identities = 204/281 (72%), Positives = 236/281 (83%), Gaps = 3/281 (1%)
Frame = +2
Query: 92 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 271
M+DQRDLISNHEQLP+LG RP PE +CSRGALYTG SVLVALLLAGQATTAYFLYQQQG
Sbjct: 1 MDDQRDLISNHEQLPILGNRPREPE-RCSRGALYTGVSVLVALLLAGQATTAYFLYQQQG 59
Query: 272 RLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEGP--EPMRNATKYGN 445
RLDKLT+TSQNLQLE ++ P+LM+ + M+ P++N TKYGN
Sbjct: 60 RLDKLTITSQNLQLESLRMKLPKSAKPVSQMRMATPLLMRPMSMDNMLLGPVKNVTKYGN 119
Query: 446 MTQDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKN 625
MTQDHVMHLL +S PL YP+LKG+ PENLKHLKN+MDGVNWK+FE+W++QWLLFEMSKN
Sbjct: 120 MTQDHVMHLLTRSGPLE-YPQLKGTFPENLKHLKNSMDGVNWKIFESWMKQWLLFEMSKN 178
Query: 626 SLEET-PFEVPPKVLTKCQEEVSRVPAVHPGMFRPKCDEDGNYMPLQCYGSIGFCWCVFP 802
SLEE P E PPKVLTKCQEEVS +PAV+PG FRPKCDE+GNY+PLQC+GS G+CWCVFP
Sbjct: 179 SLEEKKPTEAPPKVLTKCQEEVSHIPAVYPGAFRPKCDENGNYLPLQCHGSTGYCWCVFP 238
Query: 803 NGTEVPHTRSRGRHSCSDPLETEDLSSGLGVTKQDLGQVIL 925
NGTEVPHT+SRGRH+CS+PL+ EDLSSGLGVT+Q+LGQV L
Sbjct: 239 NGTEVPHTKSRGRHNCSEPLDMEDLSSGLGVTRQELGQVTL 279
>ref|NP_034675.1| H-2 class II histocompatibility antigen gamma chain isoform 2 [Mus
musculus].
Length = 215
Score = 260 bits (664), Expect = 2e-69
Identities = 133/193 (68%), Positives = 153/193 (79%), Gaps = 3/193 (1%)
Frame = +2
Query: 92 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 271
M+DQRDLISNHEQLP+LG RP PE +CSRGALYTG SVLVALLLAGQATTAYFLYQQQG
Sbjct: 1 MDDQRDLISNHEQLPILGNRPREPE-RCSRGALYTGVSVLVALLLAGQATTAYFLYQQQG 59
Query: 272 RLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEGP--EPMRNATKYGN 445
RLDKLT+TSQNLQLE ++ P+LM+ + M+ P++N TKYGN
Sbjct: 60 RLDKLTITSQNLQLESLRMKLPKSAKPVSQMRMATPLLMRPMSMDNMLLGPVKNVTKYGN 119
Query: 446 MTQDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKN 625
MTQDHVMHLL +S PL YP+LKG+ PENLKHLKN+MDGVNWK+FE+W++QWLLFEMSKN
Sbjct: 120 MTQDHVMHLLTRSGPL-EYPQLKGTFPENLKHLKNSMDGVNWKIFESWMKQWLLFEMSKN 178
Query: 626 SLEE-TPFEVPPK 661
SLEE P E PPK
Sbjct: 179 SLEEKKPTEAPPK 191
>ref|NP_001159938.1| testican-1 isoform 2 precursor [Mus musculus].
Length = 441
Score = 63.5 bits (153), Expect = 4e-10
Identities = 33/84 (39%), Positives = 45/84 (53%), Gaps = 6/84 (7%)
Frame = +2
Query: 674 CQEEVSRVPAVHPGM-----FRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRG 838
CQ E++R+ + G F P+C+E+G Y QC+GS G CWCV G E+ +R +G
Sbjct: 315 CQNEMNRIQKLSKGKSLLGAFIPRCNEEGYYKATQCHGSTGQCWCVDKYGNELAGSRKQG 374
Query: 839 RHSCSDPLETE-DLSSGLGVTKQD 907
SC + ET D SG V D
Sbjct: 375 TVSCEEEQETSGDFGSGGSVVLLD 398
>ref|NP_001159935.1| testican-1 isoform 3 precursor [Mus musculus].
Length = 439
Score = 63.5 bits (153), Expect = 4e-10
Identities = 33/84 (39%), Positives = 45/84 (53%), Gaps = 6/84 (7%)
Frame = +2
Query: 674 CQEEVSRVPAVHPGM-----FRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRG 838
CQ E++R+ + G F P+C+E+G Y QC+GS G CWCV G E+ +R +G
Sbjct: 313 CQNEMNRIQKLSKGKSLLGAFIPRCNEEGYYKATQCHGSTGQCWCVDKYGNELAGSRKQG 372
Query: 839 RHSCSDPLETE-DLSSGLGVTKQD 907
SC + ET D SG V D
Sbjct: 373 TVSCEEEQETSGDFGSGGSVVLLD 396
>ref|NP_033288.2| testican-1 isoform 1 precursor [Mus musculus].
Length = 442
Score = 63.5 bits (153), Expect = 4e-10
Identities = 33/84 (39%), Positives = 45/84 (53%), Gaps = 6/84 (7%)
Frame = +2
Query: 674 CQEEVSRVPAVHPGM-----FRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRG 838
CQ E++R+ + G F P+C+E+G Y QC+GS G CWCV G E+ +R +G
Sbjct: 316 CQNEMNRIQKLSKGKSLLGAFIPRCNEEGYYKATQCHGSTGQCWCVDKYGNELAGSRKQG 375
Query: 839 RHSCSDPLETE-DLSSGLGVTKQD 907
SC + ET D SG V D
Sbjct: 376 TVSCEEEQETSGDFGSGGSVVLLD 399
>ref|NP_032721.2| nidogen-2 precursor [Mus musculus].
Length = 1403
Score = 63.2 bits (152), Expect = 5e-10
Identities = 26/54 (48%), Positives = 38/54 (70%), Gaps = 2/54 (3%)
Frame = +2
Query: 677 QEEVSRVPAVHPG--MFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRS 832
Q+ ++ +PG + P+CD+ GN++PLQC+GS GFCWCV NG EVP T++
Sbjct: 971 QQRYAQTQHAYPGSRIHIPQCDDQGNFVPLQCHGSTGFCWCVDRNGHEVPGTQT 1024
Score = 51.2 bits (121), Expect = 2e-06
Identities = 19/37 (51%), Positives = 28/37 (75%)
Frame = +2
Query: 725 PKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSR 835
P+CD+ G+++PLQC+G FCWCV +G E+ TRS+
Sbjct: 1069 PQCDDLGHFIPLQCHGKSDFCWCVDKDGRELQGTRSQ 1105
>ref|NP_443720.1| testican-2 precursor [Mus musculus].
Length = 423
Score = 61.6 bits (148), Expect = 2e-09
Identities = 32/83 (38%), Positives = 42/83 (50%), Gaps = 1/83 (1%)
Frame = +2
Query: 647 EVPPKVLTKCQEEVSRVPAVHPGMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHT 826
E PP + + ++ PG+F P CDEDG Y +QC S G CWCV G E+ T
Sbjct: 308 EKPPCLAELERTQIQEAAKKKPGVFIPSCDEDGYYRKMQCDQSRGDCWCVDQLGLELTGT 367
Query: 827 RSRGRHSCSDPLE-TEDLSSGLG 892
R G C D + + D SG+G
Sbjct: 368 RMHGTPDCDDIVGFSGDFGSGVG 390
>ref|NP_076178.1| testican-3 precursor [Mus musculus].
Length = 436
Score = 59.3 bits (142), Expect = 8e-09
Identities = 28/59 (47%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Frame = +2
Query: 713 GMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRGRHSCSDPLE-TEDLSSG 886
G + P CDEDG Y P QC+GS+G CWCV G EV +R G C+ E + D +SG
Sbjct: 335 GQYIPLCDEDGYYKPTQCHGSVGQCWCVDRYGNEVVGSRINGVADCAIDFEISGDFASG 393
>ref|NP_035047.2| nidogen-1 precursor [Mus musculus].
Length = 1245
Score = 54.7 bits (130), Expect = 2e-07
Identities = 21/40 (52%), Positives = 30/40 (75%)
Frame = +2
Query: 713 GMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRS 832
GMF P+CDE G+Y+P QC+ S G+CWCV +G E+ +R+
Sbjct: 870 GMFVPQCDEYGHYVPTQCHHSTGYCWCVDRDGRELEGSRT 909
>ref|NP_071711.2| SPARC-related modular calcium-binding protein 1 isoform 2 [Mus
musculus].
Length = 452
Score = 52.8 bits (125), Expect = 7e-07
Identities = 23/65 (35%), Positives = 37/65 (56%), Gaps = 1/65 (1%)
Frame = +2
Query: 716 MFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRGRHS-CSDPLETEDLSSGLG 892
+F P+C EDG++ +QC+ G+CWCV P+G + + + + CS P+ + LS G
Sbjct: 112 VFVPECGEDGSFTQVQCHTYTGYCWCVTPDGKPISGSSVQNKTPVCSGPVTDKPLSQGNS 171
Query: 893 VTKQD 907
K D
Sbjct: 172 GRKDD 176
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: 49,949,672
Number of extensions: 1476499
Number of successful extensions: 8717
Number of sequences better than 1.0e-05: 12
Number of HSP's gapped: 8523
Number of HSP's successfully gapped: 13
Length of query: 510
Length of database: 15,617,559
Length adjustment: 106
Effective length of query: 404
Effective length of database: 12,433,743
Effective search space: 5023232172
Effective search space used: 5023232172
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: 36 (18.5 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-000732
(1530 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|NP_998939.1| CD74 antigen [Sus scrofa]. 348 5e-96
Alignment gi|XP_001926299.1| PREDICTED: nidogen-2 [Sus scrofa]. 71 2e-12
Alignment gi|XP_003354335.1| PREDICTED: testican-1-like [Sus scrofa]. 64 3e-10
Alignment gi|XP_003361217.1| PREDICTED: nidogen-1, partial [Sus scrofa]. 63 5e-10
Alignment gi|XP_003360811.1| PREDICTED: testican-2-like, partial [Sus scr... 62 9e-10
Alignment gi|XP_001925956.2| PREDICTED: testican-2 [Sus scrofa]. 62 9e-10
Alignment gi|XP_001927803.1| PREDICTED: testican-3 isoform 3 [Sus scrofa]. 61 2e-09
Alignment gi|XP_001927799.1| PREDICTED: testican-3 isoform 2 [Sus scrofa]. 61 2e-09
Alignment gi|XP_001927792.1| PREDICTED: testican-3 isoform 1 [Sus scrofa]. 61 2e-09
Alignment gi|XP_003121133.2| PREDICTED: hypothetical protein LOC100512748... 53 5e-07
>ref|NP_998939.1| CD74 antigen [Sus scrofa].
Length = 214
Score = 348 bits (893), Expect = 5e-96
Identities = 173/190 (91%), Positives = 173/190 (91%)
Frame = +2
Query: 92 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 271
MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG
Sbjct: 1 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 60
Query: 272 RLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEGPEPMRNATKYGNMT 451
RLDKLTVTSQNLQLE VSAPMLMQALPMEGPEPMRNATKYGNMT
Sbjct: 61 RLDKLTVTSQNLQLESLRMKLPKPSKPLSKMRVSAPMLMQALPMEGPEPMRNATKYGNMT 120
Query: 452 QDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKNSL 631
QDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKNSL
Sbjct: 121 QDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKNSL 180
Query: 632 EETPFEVPPK 661
EETPFEVPPK
Sbjct: 181 EETPFEVPPK 190
Score = 50.1 bits (118), Expect = 3e-06
Identities = 24/24 (100%), Positives = 24/24 (100%)
Frame = +2
Query: 854 DPLETEDLSSGLGVTKQDLGQVIL 925
DPLETEDLSSGLGVTKQDLGQVIL
Sbjct: 191 DPLETEDLSSGLGVTKQDLGQVIL 214
>ref|XP_001926299.1| PREDICTED: nidogen-2 [Sus scrofa].
Length = 1293
Score = 70.9 bits (172), Expect = 2e-12
Identities = 29/54 (53%), Positives = 39/54 (72%), Gaps = 2/54 (3%)
Frame = +2
Query: 677 QEEVSRVPAVHPG--MFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRS 832
Q+ ++ HPG + P+CDE G+++PLQC+GS GFCWCV PNG EVP TR+
Sbjct: 863 QQREAQAQRTHPGARLHIPQCDEQGHFLPLQCHGSTGFCWCVDPNGQEVPGTRT 916
Score = 51.6 bits (122), Expect = 1e-06
Identities = 20/37 (54%), Positives = 27/37 (72%)
Frame = +2
Query: 725 PKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSR 835
P+CD+ G++ PLQC+G FCWCV +G EV TRS+
Sbjct: 960 PQCDDLGHFTPLQCHGKSDFCWCVDQDGREVQGTRSQ 996
>ref|XP_003354335.1| PREDICTED: testican-1-like [Sus scrofa].
Length = 258
Score = 63.5 bits (153), Expect = 3e-10
Identities = 33/84 (39%), Positives = 45/84 (53%), Gaps = 6/84 (7%)
Frame = +2
Query: 674 CQEEVSRVPAVHPGM-----FRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRG 838
CQ E++R+ + G F P+C+E+G Y QC+GS G CWCV G E+ +R +G
Sbjct: 132 CQNEMNRIQKLSKGKSLLGAFIPRCNEEGYYKATQCHGSTGQCWCVDKYGNELAGSRKQG 191
Query: 839 RHSCSDPLETE-DLSSGLGVTKQD 907
SC + ET D SG V D
Sbjct: 192 AVSCEEEQETSGDFGSGGSVVLLD 215
>ref|XP_003361217.1| PREDICTED: nidogen-1, partial [Sus scrofa].
Length = 524
Score = 62.8 bits (151), Expect = 5e-10
Identities = 25/43 (58%), Positives = 31/43 (72%)
Frame = +2
Query: 710 PGMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRG 838
PG+F P+CDE G+Y P QC+GS G+CWCV +G EV TR G
Sbjct: 207 PGLFVPECDEHGHYAPTQCHGSTGYCWCVDRDGREVEGTRRPG 249
>ref|XP_003360811.1| PREDICTED: testican-2-like, partial [Sus scrofa].
Length = 351
Score = 62.0 bits (149), Expect = 9e-10
Identities = 32/83 (38%), Positives = 43/83 (51%), Gaps = 1/83 (1%)
Frame = +2
Query: 647 EVPPKVLTKCQEEVSRVPAVHPGMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHT 826
E PP + + ++ PG+F P CDEDG Y +QC S G CWCV G E+ T
Sbjct: 246 EKPPCLAELERIQIQEAAKKKPGVFIPSCDEDGYYRKMQCDQSSGDCWCVDQLGLELTGT 305
Query: 827 RSRGRHSCSDPLE-TEDLSSGLG 892
R+ G C D + + D SG+G
Sbjct: 306 RTHGSPDCDDIVGFSGDFGSGVG 328
>ref|XP_001925956.2| PREDICTED: testican-2 [Sus scrofa].
Length = 413
Score = 62.0 bits (149), Expect = 9e-10
Identities = 32/83 (38%), Positives = 43/83 (51%), Gaps = 1/83 (1%)
Frame = +2
Query: 647 EVPPKVLTKCQEEVSRVPAVHPGMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHT 826
E PP + + ++ PG+F P CDEDG Y +QC S G CWCV G E+ T
Sbjct: 298 EKPPCLAELERIQIQEAAKKKPGVFIPSCDEDGYYRKMQCDQSSGDCWCVDQLGLELTGT 357
Query: 827 RSRGRHSCSDPLE-TEDLSSGLG 892
R+ G C D + + D SG+G
Sbjct: 358 RTHGSPDCDDIVGFSGDFGSGVG 380
>ref|XP_001927803.1| PREDICTED: testican-3 isoform 3 [Sus scrofa].
Length = 427
Score = 60.8 bits (146), Expect = 2e-09
Identities = 28/59 (47%), Positives = 37/59 (62%), Gaps = 1/59 (1%)
Frame = +2
Query: 713 GMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRGRHSCSDPLE-TEDLSSG 886
G + P+CDEDG Y P+QC+GS G CWCV G EV +R+ G C+ E + D +SG
Sbjct: 329 GQYIPQCDEDGYYKPMQCHGSAGQCWCVDRYGNEVVGSRTDGVADCAADFEISGDFASG 387
>ref|XP_001927799.1| PREDICTED: testican-3 isoform 2 [Sus scrofa].
Length = 424
Score = 60.8 bits (146), Expect = 2e-09
Identities = 28/59 (47%), Positives = 37/59 (62%), Gaps = 1/59 (1%)
Frame = +2
Query: 713 GMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRGRHSCSDPLE-TEDLSSG 886
G + P+CDEDG Y P+QC+GS G CWCV G EV +R+ G C+ E + D +SG
Sbjct: 326 GQYIPQCDEDGYYKPMQCHGSAGQCWCVDRYGNEVVGSRTDGVADCAADFEISGDFASG 384
>ref|XP_001927792.1| PREDICTED: testican-3 isoform 1 [Sus scrofa].
Length = 424
Score = 60.8 bits (146), Expect = 2e-09
Identities = 28/59 (47%), Positives = 37/59 (62%), Gaps = 1/59 (1%)
Frame = +2
Query: 713 GMFRPKCDEDGNYMPLQCYGSIGFCWCVFPNGTEVPHTRSRGRHSCSDPLE-TEDLSSG 886
G + P+CDEDG Y P+QC+GS G CWCV G EV +R+ G C+ E + D +SG
Sbjct: 326 GQYIPQCDEDGYYKPMQCHGSAGQCWCVDRYGNEVVGSRTDGVADCAADFEISGDFASG 384
>ref|XP_003121133.2| PREDICTED: hypothetical protein LOC100512748 [Sus scrofa].
Length = 597
Score = 52.8 bits (125), Expect = 5e-07
Identities = 32/99 (32%), Positives = 48/99 (48%), Gaps = 9/99 (9%)
Frame = +2
Query: 635 ETPFEVPPKVLTKCQEE----VSRVPAVHPGMFRPKCDEDGNYMPLQCYGSIGFCWCVFP 802
+ P PP +++C E + +F P+C+EDG Y +QC+ G+CWCV P
Sbjct: 219 DRPSACPPADVSRCVAERKYTQEQARKELQQVFIPECNEDGTYSQVQCHSYTGYCWCVTP 278
Query: 803 N-----GTEVPHTRSRGRHSCSDPLETEDLSSGLGVTKQ 904
N GT V H R S ++ L + S+G V+ Q
Sbjct: 279 NGRPISGTAVAHKTPRCPGSVNEKLPQRE-STGKTVSLQ 316
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: 38,882,601
Number of extensions: 1338131
Number of successful extensions: 7773
Number of sequences better than 1.0e-05: 12
Number of HSP's gapped: 7530
Number of HSP's successfully gapped: 14
Length of query: 510
Length of database: 11,343,932
Length adjustment: 103
Effective length of query: 407
Effective length of database: 8,779,541
Effective search space: 3573273187
Effective search space used: 3573273187
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-000732
(1530 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
***** No hits found ******
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: 35,172,380
Number of extensions: 274
Number of successful extensions: 274
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 274
Number of HSP's successfully gapped: 0
Length of query: 1530
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1509
Effective length of database: 2,808,413,156
Effective search space: 4237895452404
Effective search space used: 4237895452404
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)