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= 20060611S-026952
(815 letters)
Database: RefSeqSP
1040 sequences; 434,620 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_998939.1| CD74 antigen [Sus scrofa] 118 4e-62
>ref|NP_998939.1| CD74 antigen [Sus scrofa]
Length = 214
Score = 118 bits (296), Expect(3) = 4e-62
Identities = 60/107 (56%), Positives = 70/107 (65%)
Frame = +1
Query: 328 RPSLPLTSMRISASMLMLALPLESPEPMLCSAFYSTXXXXXXXXXXXKSDPLRLYSNLTG 507
+PS PL+ MR+SA MLM ALP+E PEPM + Y KSDPL +Y L G
Sbjct: 83 KPSKPLSKMRVSAPMLMQALPMEGPEPMRNATKYGNMTQDHVMHLLLKSDPLGVYPKLKG 142
Query: 508 ILTEHLNHL*STMYRVFWKLFDTWLRAWLLFEMSNISLEETPFDVPP 648
L E+L HL +TM V WKLF+ WLR WLLFEMS SLEETPF+VPP
Sbjct: 143 SLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKNSLEETPFEVPP 189
Score = 115 bits (289), Expect(3) = 4e-62
Identities = 59/79 (74%), Positives = 65/79 (82%)
Frame = +3
Query: 96 DVVSYHEHLPMLGQRPWAPDSKCSRGSLYTRFSVLVALLLAGQAPTAYFLYPRHGLLDNL 275
D++S HE LPMLGQRP AP+SKCSRG+LYT FSVLVALLLAGQA TAYFLY + G LD L
Sbjct: 6 DLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQGRLDKL 65
Query: 276 TVTSLNLRLESLPMTLSAP 332
TVTS NL+LESL M L P
Sbjct: 66 TVTSQNLQLESLRMKLPKP 84
Score = 38.5 bits (88), Expect(3) = 4e-62
Identities = 20/25 (80%), Positives = 21/25 (84%)
Frame = +3
Query: 648 KYPLETEDLSSGLGVTFHDLCRVIL 722
K PLETEDLSSGLGVT DL +VIL
Sbjct: 190 KDPLETEDLSSGLGVTKQDLGQVIL 214
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: 700,495
Number of Sequences: 1040
Number of extensions: 17458
Number of successful extensions: 88
Number of sequences better than 1.0e-05: 1
Number of HSP's better than 0.0 without gapping: 78
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): 86
length of database: 434,620
effective HSP length: 75
effective length of database: 356,620
effective search space used: 69897520
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= 20060611S-026952
(815 letters)
Database: RefSeqBP
33,508 sequences; 16,112,626 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001029907.1| similar to CD74 antigen isoform b [Bos taurus] 111 5e-49
>ref|NP_001029907.1| similar to CD74 antigen isoform b [Bos taurus]
Length = 204
Score = 111 bits (278), Expect(3) = 5e-49
Identities = 57/79 (72%), Positives = 64/79 (81%)
Frame = +3
Query: 96 DVVSYHEHLPMLGQRPWAPDSKCSRGSLYTRFSVLVALLLAGQAPTAYFLYPRHGLLDNL 275
D++S HE LPMLGQRP A +SKCSRG+LYT FSVLVALLLAGQA TAYFLY + G LD L
Sbjct: 6 DLISNHEQLPMLGQRPGAQESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQGRLDKL 65
Query: 276 TVTSLNLRLESLPMTLSAP 332
TVTS NL+LE+L M L P
Sbjct: 66 TVTSQNLQLENLRMKLPKP 84
Score = 101 bits (252), Expect(3) = 5e-49
Identities = 49/107 (45%), Positives = 66/107 (61%)
Frame = +1
Query: 328 RPSLPLTSMRISASMLMLALPLESPEPMLCSAFYSTXXXXXXXXXXXKSDPLRLYSNLTG 507
+P+ P++ MR++ MLM ALP+ PEPM + Y K+DPL++Y L G
Sbjct: 83 KPAKPMSQMRMATPMLMRALPMAGPEPMKNATKYGNMTQDHVMHLLLKADPLKVYPQLKG 142
Query: 508 ILTEHLNHL*STMYRVFWKLFDTWLRAWLLFEMSNISLEETPFDVPP 648
L E+L HL +M + WKLF++WL WLLFEMS SLEE PF+ PP
Sbjct: 143 SLPENLKHLKDSMDGLDWKLFESWLHQWLLFEMSKNSLEEKPFEGPP 189
Score = 20.8 bits (42), Expect(3) = 5e-49
Identities = 10/15 (66%), Positives = 11/15 (73%)
Frame = +3
Query: 648 KYPLETEDLSSGLGV 692
K P+E E SSGLGV
Sbjct: 190 KDPMEMEYPSSGLGV 204
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: 26,579,730
Number of Sequences: 33508
Number of extensions: 694980
Number of successful extensions: 2799
Number of sequences better than 1.0e-05: 1
Number of HSP's better than 0.0 without gapping: 2514
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): 2797
length of database: 16,112,626
effective HSP length: 100
effective length of database: 12,761,826
effective search space used: 2182272246
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= 20060611S-026952
(815 letters)
Database: RefSeqHP
39,411 sequences; 17,774,539 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_004346.1| CD74 antigen isoform b [Homo sapiens] 108 8e-45
Alignment gi|NP_001020330.1| CD74 antigen isoform a [Homo sapiens] 108 6e-43
Alignment gi|NP_001020329.1| CD74 antigen isoform c [Homo sapiens] 108 5e-24
>ref|NP_004346.1| CD74 antigen isoform b [Homo sapiens]
Length = 232
Score = 108 bits (270), Expect(3) = 8e-45
Identities = 54/79 (68%), Positives = 64/79 (81%)
Frame = +3
Query: 96 DVVSYHEHLPMLGQRPWAPDSKCSRGSLYTRFSVLVALLLAGQAPTAYFLYPRHGLLDNL 275
D++S +E LPMLG+RP AP+SKCSRG+LYT FS+LV LLLAGQA TAYFLY + G LD L
Sbjct: 22 DLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLLLAGQATTAYFLYQQQGRLDKL 81
Query: 276 TVTSLNLRLESLPMTLSAP 332
TVTS NL+LE+L M L P
Sbjct: 82 TVTSQNLQLENLRMKLPKP 100
Score = 84.3 bits (207), Expect(3) = 8e-45
Identities = 43/109 (39%), Positives = 64/109 (58%), Gaps = 2/109 (1%)
Frame = +1
Query: 328 RPSLPLTSMRISASMLMLALPLES-PE-PMLCSAFYSTXXXXXXXXXXXKSDPLRLYSNL 501
+P P++ MR++ +LM ALP+ + P+ PM + Y +DPL++Y L
Sbjct: 99 KPPKPVSKMRMATPLLMQALPMGALPQGPMQNATKYGNMTEDHVMHLLQNADPLKVYPPL 158
Query: 502 TGILTEHLNHL*STMYRVFWKLFDTWLRAWLLFEMSNISLEETPFDVPP 648
G E+L HL +TM + WK+F++W+ WLLFEMS SLE+ P D PP
Sbjct: 159 KGSFPENLRHLKNTMETIDWKVFESWMHHWLLFEMSRHSLEQKPTDAPP 207
Score = 26.9 bits (58), Expect(3) = 8e-45
Identities = 14/20 (70%), Positives = 14/20 (70%)
Frame = +3
Query: 648 KYPLETEDLSSGLGVTFHDL 707
K LE ED SSGLGVT DL
Sbjct: 208 KESLELEDPSSGLGVTKQDL 227
>ref|NP_001020330.1| CD74 antigen isoform a [Homo sapiens]
Length = 296
Score = 108 bits (270), Expect(2) = 6e-43
Identities = 54/79 (68%), Positives = 64/79 (81%)
Frame = +3
Query: 96 DVVSYHEHLPMLGQRPWAPDSKCSRGSLYTRFSVLVALLLAGQAPTAYFLYPRHGLLDNL 275
D++S +E LPMLG+RP AP+SKCSRG+LYT FS+LV LLLAGQA TAYFLY + G LD L
Sbjct: 22 DLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLLLAGQATTAYFLYQQQGRLDKL 81
Query: 276 TVTSLNLRLESLPMTLSAP 332
TVTS NL+LE+L M L P
Sbjct: 82 TVTSQNLQLENLRMKLPKP 100
Score = 84.3 bits (207), Expect(2) = 6e-43
Identities = 43/109 (39%), Positives = 64/109 (58%), Gaps = 2/109 (1%)
Frame = +1
Query: 328 RPSLPLTSMRISASMLMLALPLES-PE-PMLCSAFYSTXXXXXXXXXXXKSDPLRLYSNL 501
+P P++ MR++ +LM ALP+ + P+ PM + Y +DPL++Y L
Sbjct: 99 KPPKPVSKMRMATPLLMQALPMGALPQGPMQNATKYGNMTEDHVMHLLQNADPLKVYPPL 158
Query: 502 TGILTEHLNHL*STMYRVFWKLFDTWLRAWLLFEMSNISLEETPFDVPP 648
G E+L HL +TM + WK+F++W+ WLLFEMS SLE+ P D PP
Sbjct: 159 KGSFPENLRHLKNTMETIDWKVFESWMHHWLLFEMSRHSLEQKPTDAPP 207
>ref|NP_001020329.1| CD74 antigen isoform c [Homo sapiens]
Length = 160
Score = 108 bits (270), Expect = 5e-24
Identities = 54/79 (68%), Positives = 64/79 (81%)
Frame = +3
Query: 96 DVVSYHEHLPMLGQRPWAPDSKCSRGSLYTRFSVLVALLLAGQAPTAYFLYPRHGLLDNL 275
D++S +E LPMLG+RP AP+SKCSRG+LYT FS+LV LLLAGQA TAYFLY + G LD L
Sbjct: 22 DLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLLLAGQATTAYFLYQQQGRLDKL 81
Query: 276 TVTSLNLRLESLPMTLSAP 332
TVTS NL+LE+L M L P
Sbjct: 82 TVTSQNLQLENLRMKLPKP 100
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: 30,240,049
Number of Sequences: 39411
Number of extensions: 821984
Number of successful extensions: 3515
Number of sequences better than 1.0e-05: 3
Number of HSP's better than 0.0 without gapping: 3006
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): 3508
length of database: 17,774,539
effective HSP length: 100
effective length of database: 13,833,439
effective search space used: 2365518069
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= 20060611S-026952
(815 letters)
Database: RefSeqMP
45,328 sequences; 21,768,885 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_034675.1| Ia-associated invariant chain [Mus musculus] 98 6e-37
>ref|NP_034675.1| Ia-associated invariant chain [Mus musculus]
Length = 215
Score = 97.8 bits (242), Expect(3) = 6e-37
Identities = 51/76 (67%), Positives = 60/76 (78%)
Frame = +3
Query: 96 DVVSYHEHLPMLGQRPWAPDSKCSRGSLYTRFSVLVALLLAGQAPTAYFLYPRHGLLDNL 275
D++S HE LP+LG RP P+ +CSRG+LYT SVLVALLLAGQA TAYFLY + G LD L
Sbjct: 6 DLISNHEQLPILGNRPREPE-RCSRGALYTGVSVLVALLLAGQATTAYFLYQQQGRLDKL 64
Query: 276 TVTSLNLRLESLPMTL 323
T+TS NL+LESL M L
Sbjct: 65 TITSQNLQLESLRMKL 80
Score = 63.9 bits (154), Expect(3) = 6e-37
Identities = 37/106 (34%), Positives = 57/106 (53%), Gaps = 3/106 (2%)
Frame = +1
Query: 340 PLTSMRISASMLMLALPLESP--EPMLCSAFYSTXXXXXXXXXXXKSDPLRLYSNLTGIL 513
P++ MR++ +LM + +++ P+ Y +S PL Y L G
Sbjct: 86 PVSQMRMATPLLMRPMSMDNMLLGPVKNVTKYGNMTQDHVMHLLTRSGPLE-YPQLKGTF 144
Query: 514 TEHLNHL*STMYRVFWKLFDTWLRAWLLFEMSNISLEE-TPFDVPP 648
E+L HL ++M V WK+F++W++ WLLFEMS SLEE P + PP
Sbjct: 145 PENLKHLKNSMDGVNWKIFESWMKQWLLFEMSKNSLEEKKPTEAPP 190
Score = 32.0 bits (71), Expect(3) = 6e-37
Identities = 16/25 (64%), Positives = 19/25 (76%)
Frame = +3
Query: 648 KYPLETEDLSSGLGVTFHDLCRVIL 722
K PL+ EDLSSGLGVT +L +V L
Sbjct: 191 KEPLDMEDLSSGLGVTRQELGQVTL 215
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: 35,603,484
Number of Sequences: 45328
Number of extensions: 923633
Number of successful extensions: 3715
Number of sequences better than 1.0e-05: 1
Number of HSP's better than 0.0 without gapping: 3267
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): 3709
length of database: 21,768,885
effective HSP length: 102
effective length of database: 17,145,429
effective search space used: 2897577501
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= 20060611S-026952
(815 letters)
Database: RefSeqCP
33,732 sequences; 19,266,565 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_536468.2| PREDICTED: similar to HLA class II histocompati... 114 2e-43
>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 = 114 bits (285), Expect(2) = 2e-43
Identities = 58/79 (73%), Positives = 65/79 (82%)
Frame = +3
Query: 96 DVVSYHEHLPMLGQRPWAPDSKCSRGSLYTRFSVLVALLLAGQAPTAYFLYPRHGLLDNL 275
D++S HE LP+LGQRP AP+SKCSRG+LYT FSVLVALLLAGQA TAYFLY + G LD L
Sbjct: 6 DLISNHEQLPILGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQGRLDKL 65
Query: 276 TVTSLNLRLESLPMTLSAP 332
TVTS NL+LESL M L P
Sbjct: 66 TVTSQNLQLESLRMKLPKP 84
Score = 80.5 bits (197), Expect(2) = 2e-43
Identities = 42/108 (38%), Positives = 63/108 (58%), Gaps = 2/108 (1%)
Frame = +1
Query: 328 RPSLPLTSMRISASMLMLALPLES-PE-PMLCSAFYSTXXXXXXXXXXXKSDPLRLYSNL 501
+P PL+ MR++ M+M ALP++S P+ P + Y ++DPL++Y L
Sbjct: 83 KPPKPLSKMRVATPMMMQALPIQSLPQGPTQNATEYGNMTQDHVMHLLLEADPLKVYPKL 142
Query: 502 TGILTEHLNHL*STMYRVFWKLFDTWLRAWLLFEMSNISLEETPFDVP 645
G E+L HL +TM + WK+F+ W+ WLLFEMS SLE+ +VP
Sbjct: 143 KGSFPENLKHLKNTMETLDWKVFENWMYQWLLFEMSKNSLEKKSTEVP 190
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: 31,161,030
Number of Sequences: 33732
Number of extensions: 814482
Number of successful extensions: 3529
Number of sequences better than 1.0e-05: 1
Number of HSP's better than 0.0 without gapping: 3088
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): 3470
length of database: 19,266,565
effective HSP length: 101
effective length of database: 15,859,633
effective search space used: 2696137610
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)