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-000196 (1332 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] 332 3e-91 >ref|NP_001029907.1| similar to CD74 antigen isoform b [Bos taurus] Length = 204 Score = 332 bits (852), Expect = 3e-91 Identities = 165/204 (80%), Positives = 177/204 (86%) Frame = +1 Query: 274 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 453 MEDQRDLISNHEQLPMLGQRPGA ESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG Sbjct: 1 MEDQRDLISNHEQLPMLGQRPGAQESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 60 Query: 454 RLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEGPEPMRNATKYGNMT 633 RLDKLTVTSQNLQLE ++ PMLM+ALPM GPEPM+NATKYGNMT Sbjct: 61 RLDKLTVTSQNLQLENLRMKLPKPAKPMSQMRMATPMLMRALPMAGPEPMKNATKYGNMT 120 Query: 634 QDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKNSL 813 QDHVMHLLLK+DPL VYP+LKGSLPENLKHLK++MDG++WKLFE+WL QWLLFEMSKNSL Sbjct: 121 QDHVMHLLLKADPLKVYPQLKGSLPENLKHLKDSMDGLDWKLFESWLHQWLLFEMSKNSL 180 Query: 814 EETPFEVPPKDPLETEDLSSGLGV 885 EE PFE PPKDP+E E SSGLGV Sbjct: 181 EEKPFEGPPKDPMEMEYPSSGLGV 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: 50,669,192 Number of Sequences: 33508 Number of extensions: 1523829 Number of successful extensions: 9836 Number of sequences better than 1.0e-05: 1 Number of HSP's better than 0.0 without gapping: 6361 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): 9660 length of database: 16,112,626 effective HSP length: 105 effective length of database: 12,594,286 effective search space used: 4256868668 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 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-000196 (1332 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] 394 e-111 >ref|NP_998939.1| CD74 antigen [Sus scrofa] Length = 214 Score = 394 bits (1011), Expect = e-111 Identities = 197/214 (92%), Positives = 197/214 (92%) Frame = +1 Query: 274 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 453 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG Sbjct: 1 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 60 Query: 454 RLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEGPEPMRNATKYGNMT 633 RLDKLTVTSQNLQLE VSAPMLMQALPMEGPEPMRNATKYGNMT Sbjct: 61 RLDKLTVTSQNLQLESLRMKLPKPSKPLSKMRVSAPMLMQALPMEGPEPMRNATKYGNMT 120 Query: 634 QDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKNSL 813 QDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKNSL Sbjct: 121 QDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKNSL 180 Query: 814 EETPFEVPPKDPLETEDLSSGLGVTKQDLGQVIL 915 EETPFEVPPKDPLETEDLSSGLGVTKQDLGQVIL Sbjct: 181 EETPFEVPPKDPLETEDLSSGLGVTKQDLGQVIL 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: 1,312,014 Number of Sequences: 1040 Number of extensions: 36719 Number of successful extensions: 194 Number of sequences better than 1.0e-05: 1 Number of HSP's better than 0.0 without gapping: 143 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): 188 length of database: 434,620 effective HSP length: 80 effective length of database: 351,420 effective search space used: 127565460 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-000196 (1332 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] 306 2e-83 Alignment gi|NP_001020330.1| CD74 antigen isoform a [Homo sapiens] 276 3e-74 Alignment gi|NP_001020329.1| CD74 antigen isoform c [Homo sapiens] 186 5e-47 >ref|NP_004346.1| CD74 antigen isoform b [Homo sapiens] Length = 232 Score = 306 bits (785), Expect = 2e-83 Identities = 153/214 (71%), Positives = 176/214 (82%), Gaps = 2/214 (0%) Frame = +1 Query: 274 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 453 M+DQRDLISN+EQLPMLG+RPGAPESKCSRGALYTGFS+LV LLLAGQATTAYFLYQQQG Sbjct: 17 MDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLLLAGQATTAYFLYQQQG 76 Query: 454 RLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEG-PE-PMRNATKYGN 627 RLDKLTVTSQNLQLE ++ P+LMQALPM P+ PM+NATKYGN Sbjct: 77 RLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPMGALPQGPMQNATKYGN 136 Query: 628 MTQDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKN 807 MT+DHVMHLL +DPL VYP LKGS PENL+HLKNTM+ ++WK+FE+W+ WLLFEMS++ Sbjct: 137 MTEDHVMHLLQNADPLKVYPPLKGSFPENLRHLKNTMETIDWKVFESWMHHWLLFEMSRH 196 Query: 808 SLEETPFEVPPKDPLETEDLSSGLGVTKQDLGQV 909 SLE+ P + PPK+ LE ED SSGLGVTKQDLG V Sbjct: 197 SLEQKPTDAPPKESLELEDPSSGLGVTKQDLGPV 230 >ref|NP_001020330.1| CD74 antigen isoform a [Homo sapiens] Length = 296 Score = 276 bits (706), Expect = 3e-74 Identities = 136/192 (70%), Positives = 158/192 (82%), Gaps = 2/192 (1%) Frame = +1 Query: 274 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 453 M+DQRDLISN+EQLPMLG+RPGAPESKCSRGALYTGFS+LV LLLAGQATTAYFLYQQQG Sbjct: 17 MDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLLLAGQATTAYFLYQQQG 76 Query: 454 RLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEG-PE-PMRNATKYGN 627 RLDKLTVTSQNLQLE ++ P+LMQALPM P+ PM+NATKYGN Sbjct: 77 RLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPMGALPQGPMQNATKYGN 136 Query: 628 MTQDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKN 807 MT+DHVMHLL +DPL VYP LKGS PENL+HLKNTM+ ++WK+FE+W+ WLLFEMS++ Sbjct: 137 MTEDHVMHLLQNADPLKVYPPLKGSFPENLRHLKNTMETIDWKVFESWMHHWLLFEMSRH 196 Query: 808 SLEETPFEVPPK 843 SLE+ P + PPK Sbjct: 197 SLEQKPTDAPPK 208 >ref|NP_001020329.1| CD74 antigen isoform c [Homo sapiens] Length = 160 Score = 186 bits (471), Expect = 5e-47 Identities = 97/130 (74%), Positives = 107/130 (82%), Gaps = 2/130 (1%) Frame = +1 Query: 274 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 453 M+DQRDLISN+EQLPMLG+RPGAPESKCSRGALYTGFS+LV LLLAGQATTAYFLYQQQG Sbjct: 17 MDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLLLAGQATTAYFLYQQQG 76 Query: 454 RLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEG-PE-PMRNATKYGN 627 RLDKLTVTSQNLQLE ++ P+LMQALPM P+ PM+NATKYGN Sbjct: 77 RLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPMGALPQGPMQNATKYGN 136 Query: 628 MTQDHVMHLL 657 MT+DHVMHLL Sbjct: 137 MTEDHVMHLL 146 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: 58,439,057 Number of Sequences: 39411 Number of extensions: 1861341 Number of successful extensions: 12713 Number of sequences better than 1.0e-05: 3 Number of HSP's better than 0.0 without gapping: 7489 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): 12531 length of database: 17,774,539 effective HSP length: 105 effective length of database: 13,636,384 effective search space used: 4609097792 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-000196 (1332 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... 288 8e-78 >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 = 288 bits (737), Expect = 8e-78 Identities = 146/192 (76%), Positives = 162/192 (84%), Gaps = 2/192 (1%) Frame = +1 Query: 274 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 453 MEDQRDLISNHEQLP+LGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG Sbjct: 1 MEDQRDLISNHEQLPILGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 60 Query: 454 RLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEG-PE-PMRNATKYGN 627 RLDKLTVTSQNLQLE V+ PM+MQALP++ P+ P +NAT+YGN Sbjct: 61 RLDKLTVTSQNLQLESLRMKLPKPPKPLSKMRVATPMMMQALPIQSLPQGPTQNATEYGN 120 Query: 628 MTQDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKN 807 MTQDHVMHLLL++DPL VYPKLKGS PENLKHLKNTM+ ++WK+FENW+ QWLLFEMSKN Sbjct: 121 MTQDHVMHLLLEADPLKVYPKLKGSFPENLKHLKNTMETLDWKVFENWMYQWLLFEMSKN 180 Query: 808 SLEETPFEVPPK 843 SLE+ EVP K Sbjct: 181 SLEKKSTEVPLK 192 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: 59,327,029 Number of Sequences: 33732 Number of extensions: 1792646 Number of successful extensions: 11515 Number of sequences better than 1.0e-05: 1 Number of HSP's better than 0.0 without gapping: 7080 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): 11352 length of database: 19,266,565 effective HSP length: 106 effective length of database: 15,690,973 effective search space used: 5287857901 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-000196 (1332 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] 296 3e-80 >ref|NP_034675.1| Ia-associated invariant chain [Mus musculus] Length = 215 Score = 296 bits (759), Expect = 3e-80 Identities = 151/217 (69%), Positives = 175/217 (80%), Gaps = 3/217 (1%) Frame = +1 Query: 274 MEDQRDLISNHEQLPMLGQRPGAPESKCSRGALYTGFSVLVALLLAGQATTAYFLYQQQG 453 M+DQRDLISNHEQLP+LG RP PE +CSRGALYTG SVLVALLLAGQATTAYFLYQQQG Sbjct: 1 MDDQRDLISNHEQLPILGNRPREPE-RCSRGALYTGVSVLVALLLAGQATTAYFLYQQQG 59 Query: 454 RLDKLTVTSQNLQLEXXXXXXXXXXXXXXXXXVSAPMLMQALPMEGP--EPMRNATKYGN 627 RLDKLT+TSQNLQLE ++ P+LM+ + M+ P++N TKYGN Sbjct: 60 RLDKLTITSQNLQLESLRMKLPKSAKPVSQMRMATPLLMRPMSMDNMLLGPVKNVTKYGN 119 Query: 628 MTQDHVMHLLLKSDPLGVYPKLKGSLPENLKHLKNTMDGVNWKLFENWLRQWLLFEMSKN 807 MTQDHVMHLL +S PL YP+LKG+ PENLKHLKN+MDGVNWK+FE+W++QWLLFEMSKN Sbjct: 120 MTQDHVMHLLTRSGPL-EYPQLKGTFPENLKHLKNSMDGVNWKIFESWMKQWLLFEMSKN 178 Query: 808 SLEE-TPFEVPPKDPLETEDLSSGLGVTKQDLGQVIL 915 SLEE P E PPK+PL+ EDLSSGLGVT+Q+LGQV L Sbjct: 179 SLEEKKPTEAPPKEPLDMEDLSSGLGVTRQELGQVTL 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: 67,058,496 Number of Sequences: 45328 Number of extensions: 1974374 Number of successful extensions: 12069 Number of sequences better than 1.0e-05: 1 Number of HSP's better than 0.0 without gapping: 7607 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): 11811 length of database: 21,768,885 effective HSP length: 107 effective length of database: 16,918,789 effective search space used: 5684713104 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)