Animal-Genome cDNA 20060611C-001693


Search to RefSeqSP

BLASTX 2.2.10 [Oct-19-2004]


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= 20060611C-001693
         (931 letters)

Database: RefSeqSP 
           1040 sequences; 434,620 total letters

Searching...done

 ***** No hits found ******

  Database: RefSeqSP
    Posted date:  Aug 1, 2006  7:14 PM
  Number of letters in database: 434,620
  Number of sequences in database:  1040
  
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 Hits to DB: 828,111
Number of Sequences: 1040
Number of extensions: 19389
Number of successful extensions: 67
Number of sequences better than 1.0e-05: 0
Number of HSP's better than  0.0 without gapping: 61
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 67
length of database: 434,620
effective HSP length: 76
effective length of database: 355,580
effective search space used: 82850140
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)

Search to RefSeqBP

BLASTX 2.2.10 [Oct-19-2004]


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= 20060611C-001693
         (931 letters)

Database: RefSeqBP 
           33,508 sequences; 16,112,626 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_001029502.1| hypothetical protein LOC508735 [Bos taurus]       454   e-128

>ref|NP_001029502.1| hypothetical protein LOC508735 [Bos taurus]
          Length = 521

 Score =  454 bits (1168), Expect = e-128
 Identities = 226/247 (91%), Positives = 229/247 (92%)
 Frame = +3

Query: 135 PDDLVAPVVKKPHIYYGSLEEKERERLAKGESGILGKEGLKAGIEAGNINITSGEVFEIE 314
           PDDLVAPVVKKPHIYYGSLEEKERERLAKGESG+LGKEGLKAGIEAGNINITSGEVFEIE
Sbjct: 16  PDDLVAPVVKKPHIYYGSLEEKERERLAKGESGLLGKEGLKAGIEAGNINITSGEVFEIE 75

Query: 315 EHISERQAEVLAEFERRKRARQINVSTDDSEVKACLRALGEPITLFGEGPAERRERLRNI 494
           EHISERQAEVLAEFERRKRARQINVSTDDSEVKACLRALGEPITLFGEGPAERRERLRNI
Sbjct: 76  EHISERQAEVLAEFERRKRARQINVSTDDSEVKACLRALGEPITLFGEGPAERRERLRNI 135

Query: 495 LSVVGTDALXXXXXXXXXXXXXXXXYQQTWYHEGPNSLKVARLWIANYSLPRAMKRLEEA 674
           LSVVGTDAL                YQQTWYHEGP+SLKVARLWIANYSLPRAMKRLEEA
Sbjct: 136 LSVVGTDALKKTKKDDEKSKKSKEEYQQTWYHEGPHSLKVARLWIANYSLPRAMKRLEEA 195

Query: 675 RLHKEIPETTRTSQMPELHKSLRSLNNFCSQIGDDRPISYCHFSPNSKMLATACWSGLWQ 854
           RLHKEIPETTRTSQM ELHKSLRSLNNFCSQIGDDRPISYCHFSPNSKMLATACWSGL +
Sbjct: 196 RLHKEIPETTRTSQMQELHKSLRSLNNFCSQIGDDRPISYCHFSPNSKMLATACWSGLCK 255

Query: 855 LWSVPDC 875
           LWSVPDC
Sbjct: 256 LWSVPDC 262


  Database: RefSeqBP
    Posted date:  Aug 1, 2006  7:14 PM
  Number of letters in database: 16,112,626
  Number of sequences in database:  33,508
  
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 Hits to DB: 30,848,516
Number of Sequences: 33508
Number of extensions: 740098
Number of successful extensions: 3017
Number of sequences better than 1.0e-05: 1
Number of HSP's better than  0.0 without gapping: 2748
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 3015
length of database: 16,112,626
effective HSP length: 101
effective length of database: 12,728,318
effective search space used: 2647490144
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)

Search to RefSeqHP

BLASTX 2.2.10 [Oct-19-2004]


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= 20060611C-001693
         (931 letters)

Database: RefSeqHP 
           39,411 sequences; 17,774,539 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_004688.2| PRP4 pre-mRNA processing factor 4 homolog [Homo...   456   e-128

>ref|NP_004688.2| PRP4 pre-mRNA processing factor 4 homolog [Homo sapiens]
          Length = 522

 Score =  456 bits (1172), Expect = e-128
 Identities = 227/247 (91%), Positives = 229/247 (92%)
 Frame = +3

Query: 135 PDDLVAPVVKKPHIYYGSLEEKERERLAKGESGILGKEGLKAGIEAGNINITSGEVFEIE 314
           PDDLVAPVVKKPHIYYGSLEEKERERLAKGESGILGK+GLKAGIEAGNINITSGEVFEIE
Sbjct: 17  PDDLVAPVVKKPHIYYGSLEEKERERLAKGESGILGKDGLKAGIEAGNINITSGEVFEIE 76

Query: 315 EHISERQAEVLAEFERRKRARQINVSTDDSEVKACLRALGEPITLFGEGPAERRERLRNI 494
           EHISERQAEVLAEFERRKRARQINVSTDDSEVKACLRALGEPITLFGEGPAERRERLRNI
Sbjct: 77  EHISERQAEVLAEFERRKRARQINVSTDDSEVKACLRALGEPITLFGEGPAERRERLRNI 136

Query: 495 LSVVGTDALXXXXXXXXXXXXXXXXYQQTWYHEGPNSLKVARLWIANYSLPRAMKRLEEA 674
           LSVVGTDAL                YQQTWYHEGPNSLKVARLWIANYSLPRAMKRLEEA
Sbjct: 137 LSVVGTDALKKTKKDDEKSKKSKEEYQQTWYHEGPNSLKVARLWIANYSLPRAMKRLEEA 196

Query: 675 RLHKEIPETTRTSQMPELHKSLRSLNNFCSQIGDDRPISYCHFSPNSKMLATACWSGLWQ 854
           RLHKEIPETTRTSQM ELHKSLRSLNNFCSQIGDDRPISYCHFSPNSKMLATACWSGL +
Sbjct: 197 RLHKEIPETTRTSQMQELHKSLRSLNNFCSQIGDDRPISYCHFSPNSKMLATACWSGLCK 256

Query: 855 LWSVPDC 875
           LWSVPDC
Sbjct: 257 LWSVPDC 263


  Database: RefSeqHP
    Posted date:  Aug 2, 2006 12:57 AM
  Number of letters in database: 17,774,539
  Number of sequences in database:  39,411
  
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 Hits to DB: 34,922,333
Number of Sequences: 39411
Number of extensions: 851774
Number of successful extensions: 3340
Number of sequences better than 1.0e-05: 1
Number of HSP's better than  0.0 without gapping: 2967
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 3334
length of database: 17,774,539
effective HSP length: 102
effective length of database: 13,754,617
effective search space used: 2847205719
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)

Search to RefSeqCP

BLASTX 2.2.10 [Oct-19-2004]


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= 20060611C-001693
         (931 letters)

Database: RefSeqCP 
           33,732 sequences; 19,266,565 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|XP_532038.2| PREDICTED: similar to PRP4 pre-mRNA processing ...   457   e-129

>ref|XP_532038.2| PREDICTED: similar to PRP4 pre-mRNA processing factor 4 homolog
           [Canis familiaris]
          Length = 521

 Score =  457 bits (1175), Expect = e-129
 Identities = 228/247 (92%), Positives = 229/247 (92%)
 Frame = +3

Query: 135 PDDLVAPVVKKPHIYYGSLEEKERERLAKGESGILGKEGLKAGIEAGNINITSGEVFEIE 314
           PDDLVAPVVKKPHIYYGSLEEKERERLAKGESGILGKEGLKAGIEAGNINITSGEVFEIE
Sbjct: 16  PDDLVAPVVKKPHIYYGSLEEKERERLAKGESGILGKEGLKAGIEAGNINITSGEVFEIE 75

Query: 315 EHISERQAEVLAEFERRKRARQINVSTDDSEVKACLRALGEPITLFGEGPAERRERLRNI 494
           EHISERQAEVLAEFERRKRARQINVSTDDSEVKACLRALGEPITLFGEGPAERRERLRNI
Sbjct: 76  EHISERQAEVLAEFERRKRARQINVSTDDSEVKACLRALGEPITLFGEGPAERRERLRNI 135

Query: 495 LSVVGTDALXXXXXXXXXXXXXXXXYQQTWYHEGPNSLKVARLWIANYSLPRAMKRLEEA 674
           LSVVGTDAL                YQQTWYHEGPNSLKVARLWIANYSLPRAMKRLEEA
Sbjct: 136 LSVVGTDALKKTKKDDEKSKKSKEEYQQTWYHEGPNSLKVARLWIANYSLPRAMKRLEEA 195

Query: 675 RLHKEIPETTRTSQMPELHKSLRSLNNFCSQIGDDRPISYCHFSPNSKMLATACWSGLWQ 854
           RLHKEIPETTRTSQM ELHKSLRSLNNFCSQIGDDRPISYCHFSPNSKMLATACWSGL +
Sbjct: 196 RLHKEIPETTRTSQMQELHKSLRSLNNFCSQIGDDRPISYCHFSPNSKMLATACWSGLCK 255

Query: 855 LWSVPDC 875
           LWSVPDC
Sbjct: 256 LWSVPDC 262


  Database: RefSeqCP
    Posted date:  Aug 1, 2006  9:25 PM
  Number of letters in database: 19,266,565
  Number of sequences in database:  33,732
  
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 Hits to DB: 36,333,922
Number of Sequences: 33732
Number of extensions: 871406
Number of successful extensions: 3430
Number of sequences better than 1.0e-05: 1
Number of HSP's better than  0.0 without gapping: 3047
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 3428
length of database: 19,266,565
effective HSP length: 103
effective length of database: 15,792,169
effective search space used: 3253186814
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)

Search to RefSeqMP

BLASTX 2.2.10 [Oct-19-2004]


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= 20060611C-001693
         (931 letters)

Database: RefSeqMP 
           45,328 sequences; 21,768,885 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_081573.1| PRP4 pre-mRNA processing factor 4 homolog [Mus ...   457   e-129

>ref|NP_081573.1| PRP4 pre-mRNA processing factor 4 homolog [Mus musculus]
          Length = 521

 Score =  457 bits (1175), Expect = e-129
 Identities = 228/247 (92%), Positives = 229/247 (92%)
 Frame = +3

Query: 135 PDDLVAPVVKKPHIYYGSLEEKERERLAKGESGILGKEGLKAGIEAGNINITSGEVFEIE 314
           PDDLVAPVVKKPHIYYGSLEEKERERLAKGESGILGKEGLKAGIEAGNINITSGEVFEIE
Sbjct: 16  PDDLVAPVVKKPHIYYGSLEEKERERLAKGESGILGKEGLKAGIEAGNINITSGEVFEIE 75

Query: 315 EHISERQAEVLAEFERRKRARQINVSTDDSEVKACLRALGEPITLFGEGPAERRERLRNI 494
           EHISERQAEVLAEFERRKRARQINVSTDDSEVKACLRALGEPITLFGEGPAERRERLRNI
Sbjct: 76  EHISERQAEVLAEFERRKRARQINVSTDDSEVKACLRALGEPITLFGEGPAERRERLRNI 135

Query: 495 LSVVGTDALXXXXXXXXXXXXXXXXYQQTWYHEGPNSLKVARLWIANYSLPRAMKRLEEA 674
           LSVVGTDAL                YQQTWYHEGPNSLKVARLWIANYSLPRAMKRLEEA
Sbjct: 136 LSVVGTDALKKTKKDDEKSKKSKEEYQQTWYHEGPNSLKVARLWIANYSLPRAMKRLEEA 195

Query: 675 RLHKEIPETTRTSQMPELHKSLRSLNNFCSQIGDDRPISYCHFSPNSKMLATACWSGLWQ 854
           RLHKEIPETTRTSQM ELHKSLRSLNNFCSQIGDDRPISYCHFSPNSKMLATACWSGL +
Sbjct: 196 RLHKEIPETTRTSQMQELHKSLRSLNNFCSQIGDDRPISYCHFSPNSKMLATACWSGLCK 255

Query: 855 LWSVPDC 875
           LWSVPDC
Sbjct: 256 LWSVPDC 262


  Database: RefSeqMP
    Posted date:  Aug 2, 2006 12:58 AM
  Number of letters in database: 21,768,885
  Number of sequences in database:  45,328
  
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 Hits to DB: 41,502,717
Number of Sequences: 45328
Number of extensions: 996184
Number of successful extensions: 3928
Number of sequences better than 1.0e-05: 1
Number of HSP's better than  0.0 without gapping: 3392
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 3925
length of database: 21,768,885
effective HSP length: 103
effective length of database: 17,100,101
effective search space used: 3522620806
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)