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-043651 (1343 letters) Database: RefSeqSP 1040 sequences; 434,620 total letters Searching...done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] 56 2e-09 Alignment gi|NP_998996.1| CD1 antigen [Sus scrofa] 52 3e-08 Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 48 6e-07 >ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] Length = 401 Score = 56.2 bits (134), Expect = 2e-09 Identities = 36/130 (27%), Positives = 58/130 (44%), Gaps = 5/130 (3%) Frame = +3 Query: 366 QNDLLHHNRAELDTACI---HNYQIEESTTLQRRVQPT--VTISPSHAEALNHRNLLVCA 530 + + +RA L+ AC+ H Y TLQR P VT PS +++ L C Sbjct: 170 EETVAEQSRAYLEVACVQSLHRYLANGKETLQRSDPPKTHVTRHPSS----DNKVTLRCW 225 Query: 531 GTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHS 710 FYP ++ + W + GQ+++ V +G T++ L + YTC V+H Sbjct: 226 ALGFYPKEISLTWQQEGQDQSQDVEVVETRPSGDGTFRKWAALVVPPGEEQSYTCHVQHE 285 Query: 711 SLQSRILVEW 740 LQ + + W Sbjct: 286 GLQEPLTLRW 295 >ref|NP_998996.1| CD1 antigen [Sus scrofa] Length = 339 Score = 52.0 bits (123), Expect = 3e-08 Identities = 33/103 (32%), Positives = 52/103 (50%), Gaps = 1/103 (0%) Frame = +3 Query: 447 LQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITN 626 LQR+V+P +S + H +LVC + FYP + V W R+ QE+ G ++ N Sbjct: 199 LQRQVRPEAWLSSGPNPSPGHL-MLVCHVSGFYPKPIWVMWMRDEQEQ-PGTQQGDILPN 256 Query: 627 GHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSR-ILVEWRAQS 752 T+ + V L + +CRV+HSSL + I++ W S Sbjct: 257 ADGTWYLRVTLDVAAGEASGLSCRVKHSSLGGQDIILYWEQHS 299 >ref|NP_999143.1| beta 2-microglobulin [Sus scrofa] Length = 118 Score = 47.8 bits (112), Expect = 6e-07 Identities = 25/92 (27%), Positives = 45/92 (48%) Frame = +3 Query: 465 PTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQ 644 P V + H N L C + F+P Q+++ +NG++ A + L + W++ Sbjct: 25 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSFY 82 Query: 645 VLVMLHMNLHRGDVYTCRVEHSSLQSRILVEW 740 +LV + D Y+CRV+H +L +V+W Sbjct: 83 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 114 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: 1,279,226 Number of Sequences: 1040 Number of extensions: 33541 Number of successful extensions: 111 Number of sequences better than 1.0e-05: 3 Number of HSP's better than 0.0 without gapping: 98 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): 109 length of database: 434,620 effective HSP length: 80 effective length of database: 351,420 effective search space used: 128971140 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-043651 (1343 letters) Database: RefSeqBP 33,508 sequences; 16,112,626 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 258 8e-69 Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 248 6e-66 Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 199 3e-51 Alignment gi|NP_001012698.2| major histocompatibility complex, class II, ... 185 8e-47 Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 171 2e-42 Alignment gi|XP_582099.2| PREDICTED: similar to major histocompatibility ... 170 3e-42 Alignment gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati... 169 4e-42 Alignment gi|XP_874766.1| PREDICTED: similar to HLA class II histocompati... 131 1e-30 Alignment gi|NP_001035571.1| major histocompatibility complex, class II, ... 62 1e-09 Alignment gi|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus] 60 5e-09 >ref|NP_001029840.2| MHC class II antigen [Bos taurus] Length = 261 Score = 258 bits (659), Expect = 8e-69 Identities = 146/263 (55%), Positives = 161/263 (61%), Gaps = 1/263 (0%) Frame = +3 Query: 78 MSGMGALRLPKGLWTAAVTMMRGGAGCSGG*RHRLSTGFPVPF*VLSA-TSSDELTGCRL 254 MSGM AL +P+GLWTA V + G F V F L T+ E R Sbjct: 1 MSGMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGLCYFTNGTERV--RY 58 Query: 255 VAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIE 434 V R IY YRA+TPLGRPDA WNSQ D L RAE DT C HNYQ E Sbjct: 59 VTRYIYNQEEYVRFDSDWDLYRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAE 118 Query: 435 ESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTP 614 T+LQRRV+PTVTISPS EALNH NLLVC+ TDFYPSQ+KV+WFRN +EETAGVVSTP Sbjct: 119 LITSLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTP 178 Query: 615 LITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLSXXXXX 794 LI NG WT+Q+LVML M RGDVYTC VEH SLQS I+VEWRAQSESA S MLS Sbjct: 179 LIRNGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLSGVGGF 238 Query: 795 XXXXXXXXXXXXXXXRSHKELVR 863 RS K L+R Sbjct: 239 VLGLIFLGLGLIIHHRSQKGLMR 261 >ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus] Length = 261 Score = 248 bits (634), Expect = 6e-66 Identities = 135/234 (57%), Positives = 154/234 (65%) Frame = +3 Query: 78 MSGMGALRLPKGLWTAAVTMMRGGAGCSGG*RHRLSTGFPVPF*VLSATSSDELTGCRLV 257 MSGM ALR+P+GLWTAAV + G R S V + ++ R V Sbjct: 1 MSGMVALRIPRGLWTAAVMVTLAVLSTPGA-EGRDSPQDTVVHFMGQCYFTNGTERVRYV 59 Query: 258 AR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIEE 437 R IY YRAVT LGR A WNSQ D+L RAELDT C HNYQ+E Sbjct: 60 TRYIYNQEETAYYDSDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEV 119 Query: 438 STTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPL 617 T+LQR+V+PTVTIS S EALNH NLLVC+ TDFYP Q+KV+WF+NG+EETAG+VSTPL Sbjct: 120 ITSLQRQVEPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPL 179 Query: 618 ITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 I NG WT+Q+LVML M RGDVYTC VEH SLQS I VEWRAQSESA S MLS Sbjct: 180 IRNGDWTFQILVMLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKMLS 233 >ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus] Length = 259 Score = 199 bits (507), Expect = 3e-51 Identities = 105/177 (59%), Positives = 118/177 (66%) Frame = +3 Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428 RLVAR IY + AVT LGR A WN+Q DLL RA +DT C HNY+ Sbjct: 55 RLVARQIYNKEEILHFDSDLGEFVAVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYK 114 Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608 T+QRRV+PTVT+SP+ EALNH NLLVC+ TDFYP QVKV+WFRN QE+TAGV Sbjct: 115 ETAGFTVQRRVEPTVTVSPASTEALNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGF 174 Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 TPL NG WTYQ+ VML GDVY C V+H SLQS I VEWRAQSESA S M S Sbjct: 175 TPLTQNGDWTYQIHVMLETVPQLGDVYVCHVDHPSLQSPITVEWRAQSESAQSKMQS 231 >ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus] Length = 266 Score = 185 bits (469), Expect = 8e-47 Identities = 88/155 (56%), Positives = 108/155 (69%) Frame = +3 Query: 315 YRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIEESTTLQRRVQPTVTISPSHA 494 +RAVT LGRP A WNSQ D L RAE+D C HNY ES T+QRRV+PTVT+ P+ Sbjct: 76 FRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTVQRRVEPTVTVYPAKT 135 Query: 495 EALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQVLVMLHMNLH 674 + L H NLLVC+ FYP ++V+WFRNG EE AGV+ST LI NG WT+Q +VML Sbjct: 136 QPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNGDWTFQTMVMLETVPQ 195 Query: 675 RGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 G+VYTC+V+H S I VEWRA+S+SA S M+S Sbjct: 196 SGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMS 230 >ref|NP_001013618.1| major histocompatibility complex, class II, DO beta [Bos taurus] Length = 271 Score = 171 bits (432), Expect = 2e-42 Identities = 85/177 (48%), Positives = 109/177 (61%) Frame = +3 Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428 R V R I+ + A+T LG+PDA WN++ D+L +RA +D C NY Sbjct: 51 RFVVRFIFNLEDYARFDSDLGMFVALTELGKPDAERWNNRPDILARSRASVDMLCRRNYY 110 Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608 + T+ RRVQP VT+ P AL HRNLL+C T FYP +KV WFRNGQE+ G++S Sbjct: 111 LGAPFTVGRRVQPEVTVYPEKTPALQHRNLLLCLVTGFYPGDIKVTWFRNGQEQREGIMS 170 Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 T LI NG WT+Q+ VML M G+VYTC V+H SL S + VEWRAQSE + +LS Sbjct: 171 TGLIRNGDWTFQMTVMLAMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILS 227 >ref|XP_582099.2| PREDICTED: similar to major histocompatibility complex, class II, DR beta 5 precursor [Bos taurus] Length = 255 Score = 170 bits (430), Expect = 3e-42 Identities = 87/184 (47%), Positives = 110/184 (59%) Frame = +3 Query: 228 SDELTGCRLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDT 407 S+ L R AR IY + A+T LGR DA WN Q D + RA++DT Sbjct: 36 SNGLERMRFFARYIYNTQEDVHFDSDVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDT 95 Query: 408 ACIHNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQE 587 C NYQ S QRRV+PTVT+ P+ + L H NLLVC+ FYP ++V+WF N E Sbjct: 96 LCRSNYQGIGSFLRQRRVEPTVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHE 155 Query: 588 ETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHS 767 E AGV+ST LI NG WT+Q +VML G+VYTC+VEH S S + VEWRAQS+SA Sbjct: 156 EEAGVISTGLIQNGDWTFQTMVMLETVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQR 215 Query: 768 NMLS 779 ++S Sbjct: 216 KLMS 219 >ref|XP_876139.1| PREDICTED: similar to H-2 class II histocompatibility antigen, I-E beta chain precursor [Bos taurus] Length = 269 Score = 169 bits (429), Expect = 4e-42 Identities = 87/177 (49%), Positives = 105/177 (59%) Frame = +3 Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428 R + R IY YRA T +GRP A WN L RA + C NY+ Sbjct: 18 RFLDRYIYNREEQVQFDSLVGEYRARTEMGRPAAERWNRWPQALQRARAAVHAYCASNYE 77 Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608 S T+QRRVQPTVT+ P + L H NLLVC+ FYP ++V+WFRNGQEE AGVVS Sbjct: 78 FFASRTVQRRVQPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVRWFRNGQEEEAGVVS 137 Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 T LI NG WT+Q++VML + G+VY C VEH S S + VEWRAQ ES+ MLS Sbjct: 138 TGLIPNGDWTFQIMVMLEIVPQGGEVYACHVEHPSRTSPVTVEWRAQDESSQEKMLS 194 >ref|XP_874766.1| PREDICTED: similar to HLA class II histocompatibility antigen, DRB1-7 beta chain precursor (MHC class I antigen DRB1*7) (DR-7) (DR7) [Bos taurus] Length = 347 Score = 131 bits (330), Expect = 1e-30 Identities = 63/125 (50%), Positives = 84/125 (67%), Gaps = 2/125 (1%) Frame = +3 Query: 411 CIH--NYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQ 584 C H + TLQ++V+PTVT+ P+ + L H +LLVC+ FY V+V+WF GQ Sbjct: 77 CFHPIGLKANRDITLQKKVEPTVTVYPAKTQPLQHNHLLVCSVNGFYLGHVEVRWFWKGQ 136 Query: 585 EETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAH 764 EE AGV+ST LI NG WT++ +VML L G+VYTC++EH S +S I EWRAQS+SA Sbjct: 137 EEEAGVISTGLIQNGDWTFETIVMLETVLQSGEVYTCQLEHPSWRSPIAEEWRAQSDSAQ 196 Query: 765 SNMLS 779 S M+S Sbjct: 197 SKMMS 201 >ref|NP_001035571.1| major histocompatibility complex, class II, DM beta-chain, expressed [Bos taurus] Length = 262 Score = 61.6 bits (148), Expect = 1e-09 Identities = 41/128 (32%), Positives = 55/128 (42%), Gaps = 1/128 (0%) Frame = +3 Query: 360 NSQNDLLHHNRAELDTACIHNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTD 539 N+ + L+ L H S T + R PTV ++ + +L C Sbjct: 81 NNNSYLIQRLSNGLQNCAAHTQPFWSSLTHRTR-PPTVQVAKTTPFNTRESVMLACYVWG 139 Query: 540 FYPSQVKVQWFRNGQEETAGVVSTPLIT-NGHWTYQVLVMLHMNLHRGDVYTCRVEHSSL 716 FYP+ V + W RNGQE + +I NG WTYQ + L GD YTC VEH Sbjct: 140 FYPADVAITWRRNGQEVLPHGRAWRIIQPNGDWTYQTVSHLATTPSFGDTYTCVVEHIGA 199 Query: 717 QSRILVEW 740 IL +W Sbjct: 200 PELILQDW 207 >ref|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus] Length = 299 Score = 59.7 bits (143), Expect = 5e-09 Identities = 42/147 (28%), Positives = 68/147 (46%), Gaps = 5/147 (3%) Frame = +3 Query: 330 PLGRPDAYSWNSQNDLLHHNRAELDTAC---IHNYQIEESTTLQRRVQPTVTISPSHAEA 500 P + W ++ + +A L+ C + Y T L R+ P+V+++ HA A Sbjct: 156 PAAQNTKRKWEAEAVYVQRAKAYLEEECPGMLRRYLPYSRTHLDRQESPSVSVT-GHA-A 213 Query: 501 LNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQVLVMLHMNLHRG 680 H+ L C DFYP + + W R G + A ++ +G+ TYQ V++ + Sbjct: 214 PGHKRTLKCLAYDFYPRSIGLHWTRAGDAQEA-ESGGDVLPSGNGTYQSWVVVGVPPEDQ 272 Query: 681 DVYTCRVEHSSLQSRILVEW--RAQSE 755 Y+C VEH SL + V W R Q+E Sbjct: 273 APYSCHVEHRSLTRPLTVPWDPRQQAE 299 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: 48,427,599 Number of Sequences: 33508 Number of extensions: 1319643 Number of successful extensions: 4341 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 3682 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): 4299 length of database: 16,112,626 effective HSP length: 105 effective length of database: 12,594,286 effective search space used: 4307245812 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-043651 (1343 letters) Database: RefSeqHP 39,411 sequences; 17,774,539 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_002114.2| major histocompatibility complex, class II, DQ ... 238 7e-63 Alignment gi|NP_872355.1| major histocompatibility complex, class II, DQ ... 207 1e-53 Alignment gi|NP_002115.1| major histocompatibility complex, class II, DR ... 204 2e-52 Alignment gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati... 200 3e-51 Alignment gi|XP_949915.1| PREDICTED: similar to HLA class II histocompati... 200 3e-51 Alignment gi|NP_002112.3| major histocompatibility complex, class II, DP ... 199 6e-51 Alignment gi|NP_002116.2| major histocompatibility complex, class II, DR ... 198 1e-50 Alignment gi|NP_068818.4| major histocompatibility complex, class II, DR ... 197 2e-50 Alignment gi|NP_072049.2| major histocompatibility complex, class II, DR ... 194 1e-49 Alignment gi|XP_949921.1| PREDICTED: similar to HLA class II histocompati... 184 1e-46 >ref|NP_002114.2| major histocompatibility complex, class II, DQ beta 1 precursor [Homo sapiens] Length = 261 Score = 238 bits (608), Expect = 7e-63 Identities = 134/235 (57%), Positives = 150/235 (63%), Gaps = 1/235 (0%) Frame = +3 Query: 78 MSGMGALRLPKGLWTAAVTMMRGGAGCSGG*RHRLSTGFPVPF*VLSA-TSSDELTGCRL 254 MS ALR+P GL A VT+M F F + T+ E RL Sbjct: 1 MSWKKALRIPGGLRAATVTLMLSMLSTPVAEGRDSPEDFVYQFKGMCYFTNGTERV--RL 58 Query: 255 VAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIE 434 V+R IY +RAVT LG P A WNSQ D+L RA +D C HNYQ+E Sbjct: 59 VSRSIYNREEIVRFDSDVGEFRAVTLLGLPAAEYWNSQKDILERKRAAVDRVCRHNYQLE 118 Query: 435 ESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTP 614 TTLQRRV+PTVTISPS EALNH NLLVC+ TDFYP+Q+KV+WFRN QEETAGVVSTP Sbjct: 119 LRTTLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPAQIKVRWFRNDQEETAGVVSTP 178 Query: 615 LITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 LI NG WT+Q+LVML M RGDVYTC VEH SLQS I VEWRAQSESA S MLS Sbjct: 179 LIRNGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLS 233 >ref|NP_872355.1| major histocompatibility complex, class II, DQ beta 2 [Homo sapiens] Length = 231 Score = 207 bits (528), Expect = 1e-53 Identities = 117/223 (52%), Positives = 137/223 (61%), Gaps = 1/223 (0%) Frame = +3 Query: 78 MSGMGALRLPKGLWTAAVTMMRGGAGCSGG*RHRLSTGFPVPF*VLSA-TSSDELTGCRL 254 MS AL++P G W AAVT+M F V F + T+ E R Sbjct: 1 MSWKMALQIPGGFWAAAVTVMLVMLSTPVAEARDFPKDFLVQFKGMCYFTNGTERV--RG 58 Query: 255 VAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIE 434 VAR IY ++AVT LGR WN+ D L RA +D C HNY+ E Sbjct: 59 VARYIYNREEYGRFDSDVGEFQAVTELGR-SIEDWNNYKDFLEQERAAVDKVCRHNYEAE 117 Query: 435 ESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTP 614 TTLQR+V+PTVTISPS EALNH NLLVC+ TDFYP+Q+KVQWFRN QEETAGVVST Sbjct: 118 LRTTLQRQVEPTVTISPSRTEALNHHNLLVCSVTDFYPAQIKVQWFRNDQEETAGVVSTS 177 Query: 615 LITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWR 743 LI NG WT+Q+LVML + RGD+YTC+VEH SLQS I VEWR Sbjct: 178 LIRNGDWTFQILVMLEITPQRGDIYTCQVEHPSLQSPITVEWR 220 >ref|NP_002115.1| major histocompatibility complex, class II, DR beta 1 precursor [Homo sapiens] Length = 266 Score = 204 bits (518), Expect = 2e-52 Identities = 102/177 (57%), Positives = 120/177 (67%) Frame = +3 Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428 RL+ R IY YRAVT LGRPDA WNSQ DLL RA +DT C HNY Sbjct: 54 RLLERCIYNQEESVRFDSDVGEYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYG 113 Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608 + ES T+QRRV+P VT+ PS + L H NLLVC+ + FYP ++V+WFRNGQEE AGVVS Sbjct: 114 VGESFTVQRRVEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVS 173 Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 T LI NG WT+Q LVML G+VYTC+VEH S+ S + VEWRA+SESA S MLS Sbjct: 174 TGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLS 230 >ref|XP_945926.1| PREDICTED: similar to HLA class II histocompatibility antigen, DRB1-9 beta chain precursor (MHC class I antigen DRB1*9) (DR-9) (DR9) isoform 1 [Homo sapiens] Length = 266 Score = 200 bits (508), Expect = 3e-51 Identities = 100/177 (56%), Positives = 118/177 (66%) Frame = +3 Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428 R + R IY YRAVT LGRP A SWNSQ D L RAE+DT C HNY Sbjct: 54 RYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYG 113 Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608 + ES T+QRRV P VT+ P+ + L H NLLVC+ + FYP ++V+WFRNGQEE AGVVS Sbjct: 114 VGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVS 173 Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 T LI NG WT+Q LVML G+VYTC+VEH S+ S + VEWRA+SESA S MLS Sbjct: 174 TGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLS 230 >ref|XP_949915.1| PREDICTED: similar to HLA class II histocompatibility antigen, DRB1-9 beta chain precursor (MHC class I antigen DRB1*9) (DR-9) (DR9) isoform 2 [Homo sapiens] Length = 284 Score = 200 bits (508), Expect = 3e-51 Identities = 100/177 (56%), Positives = 118/177 (66%) Frame = +3 Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428 R + R IY YRAVT LGRP A SWNSQ D L RAE+DT C HNY Sbjct: 72 RYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYG 131 Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608 + ES T+QRRV P VT+ P+ + L H NLLVC+ + FYP ++V+WFRNGQEE AGVVS Sbjct: 132 VGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVS 191 Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 T LI NG WT+Q LVML G+VYTC+VEH S+ S + VEWRA+SESA S MLS Sbjct: 192 TGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLS 248 >ref|NP_002112.3| major histocompatibility complex, class II, DP beta 1 precursor [Homo sapiens] Length = 258 Score = 199 bits (505), Expect = 6e-51 Identities = 99/177 (55%), Positives = 117/177 (66%) Frame = +3 Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428 R + R IY +RAVT LGRP A WNSQ D+L RA D C HNY+ Sbjct: 52 RFLERYIYNREEFARFDSDVGEFRAVTELGRPAAEYWNSQKDILEEKRAVPDRMCRHNYE 111 Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608 + TLQRRVQP V +SPS L H NLLVC TDFYP ++V+WF NGQEETAGVVS Sbjct: 112 LGGPMTLQRRVQPRVNVSPSKKGPLQHHNLLVCHVTDFYPGSIQVRWFLNGQEETAGVVS 171 Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 T LI NG WT+Q+LVML M +GDVYTC+VEH+SL S + VEW+AQS+SA S L+ Sbjct: 172 TNLIRNGDWTFQILVMLEMTPQQGDVYTCQVEHTSLDSPVTVEWKAQSDSARSKTLT 228 >ref|NP_002116.2| major histocompatibility complex, class II, DR beta 5 precursor [Homo sapiens] Length = 266 Score = 198 bits (503), Expect = 1e-50 Identities = 99/177 (55%), Positives = 116/177 (65%) Frame = +3 Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428 R + R IY YRAVT LGRPDA WNSQ D L RA +DT C HNY Sbjct: 54 RFLHRDIYNQEEDLRFDSDVGEYRAVTELGRPDAEYWNSQKDFLEDRRAAVDTYCRHNYG 113 Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608 + ES T+QRRV+P VT+ P+ + L H NLLVC+ FYP ++V+WFRN QEE AGVVS Sbjct: 114 VGESFTVQRRVEPKVTVYPARTQTLQHHNLLVCSVNGFYPGSIEVRWFRNSQEEKAGVVS 173 Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 T LI NG WT+Q LVML G+VYTC+VEH S+ S + VEWRAQSESA S MLS Sbjct: 174 TGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRAQSESAQSKMLS 230 >ref|NP_068818.4| major histocompatibility complex, class II, DR beta 4 precursor [Homo sapiens] Length = 266 Score = 197 bits (500), Expect = 2e-50 Identities = 98/173 (56%), Positives = 116/173 (67%) Frame = +3 Query: 261 R*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIEES 440 R IY Y+AVT LGRPDA WNSQ DLL RAE+DT C +NY + ES Sbjct: 58 RYIYNQEEYARYNSDLGEYQAVTELGRPDAEYWNSQKDLLERRRAEVDTYCRYNYGVVES 117 Query: 441 TTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLI 620 T+QRRVQP VT+ PS + L H NLLVC+ FYP ++V+WFRNGQEE AGVVST LI Sbjct: 118 FTVQRRVQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFRNGQEEKAGVVSTGLI 177 Query: 621 TNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 NG WT+Q LVML G+VYTC+VEH S+ S + V+W A+SESA S MLS Sbjct: 178 QNGDWTFQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLS 230 >ref|NP_072049.2| major histocompatibility complex, class II, DR beta 3 precursor [Homo sapiens] Length = 266 Score = 194 bits (493), Expect = 1e-49 Identities = 94/155 (60%), Positives = 111/155 (71%) Frame = +3 Query: 315 YRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIEESTTLQRRVQPTVTISPSHA 494 YRAVT LGRP A SWNSQ DLL R +D C HNY + ES T+QRRV P VT+ P+ Sbjct: 76 YRAVTELGRPVAESWNSQKDLLEQKRGRVDNYCRHNYGVGESFTVQRRVHPQVTVYPAKT 135 Query: 495 EALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQVLVMLHMNLH 674 + L H NLLVC+ + FYP ++V+WFRNGQEE AGVVST LI NG WT+Q LVML Sbjct: 136 QPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLETVPR 195 Query: 675 RGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 G+VYTC+VEH S+ S + VEWRA+SESA S MLS Sbjct: 196 SGEVYTCQVEHPSVTSALTVEWRARSESAQSKMLS 230 >ref|XP_949921.1| PREDICTED: similar to HLA class II histocompatibility antigen, DRB1-9 beta chain precursor (MHC class I antigen DRB1*9) (DR-9) (DR9) isoform 3 [Homo sapiens] Length = 325 Score = 184 bits (467), Expect = 1e-46 Identities = 91/167 (54%), Positives = 108/167 (64%) Frame = +3 Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428 R + R IY YRAVT LGRP A SWNSQ D L RAE+DT C HNY Sbjct: 54 RYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYG 113 Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608 + ES T+QRRV P VT+ P+ + L H NLLVC+ + FYP ++V+WFRNGQEE AGVVS Sbjct: 114 VGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVS 173 Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQ 749 T LI NG WT+Q LVML G+VYTC+VEH S+ S + VEW Q Sbjct: 174 TGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWSEQ 220 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: 55,087,480 Number of Sequences: 39411 Number of extensions: 1554297 Number of successful extensions: 5626 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 4602 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): 5535 length of database: 17,774,539 effective HSP length: 105 effective length of database: 13,636,384 effective search space used: 4663643328 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-043651 (1343 letters) Database: RefSeqCP 33,732 sequences; 19,266,565 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 236 4e-62 Alignment gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami... 197 3e-50 Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 174 2e-43 Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 164 2e-40 Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 57 3e-08 Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 55 1e-07 Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 55 2e-07 Alignment gi|NP_001011726.1| MHC class II DLA DQalpha chain [Canis famili... 54 4e-07 Alignment gi|XP_853335.1| PREDICTED: similar to T-cell surface glycoprote... 53 6e-07 Alignment gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec... 50 7e-06 >ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris] Length = 269 Score = 236 bits (602), Expect = 4e-62 Identities = 128/234 (54%), Positives = 147/234 (62%) Frame = +3 Query: 78 MSGMGALRLPKGLWTAAVTMMRGGAGCSGG*RHRLSTGFPVPF*VLSATSSDELTGCRLV 257 MSG L +P+G WTAAV M+ F + ++ RL+ Sbjct: 1 MSGKMTLCIPRGFWTAAVMMILVVLSIPVAEGRDSPQDFVFQY-KAECYFTNGTERVRLL 59 Query: 258 AR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIEE 437 + IY +RAVT LGRPDA WN Q D + RAELDT C HNY EE Sbjct: 60 TKYIYNREEFVRFDSDVGEFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREE 119 Query: 438 STTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPL 617 TTLQRRV+PTVTI PS E LNH NLLVC+ TDFYP Q+KV+WFRN QE+TAGVVSTPL Sbjct: 120 LTTLQRRVEPTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPL 179 Query: 618 ITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 I NG WT+Q+LVML M RGDVYTC VEH+SLQS I V+WRAQSESA S MLS Sbjct: 180 IRNGDWTFQILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLS 233 >ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris] Length = 266 Score = 197 bits (500), Expect = 3e-50 Identities = 97/177 (54%), Positives = 119/177 (67%) Frame = +3 Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428 R V R I+ +RAVT LGRP A SWN Q ++L RA +DT C HNY Sbjct: 54 RFVERYIHNREEFVRFDSDVGEFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYG 113 Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608 + ES T+QRRV+PTVT+ P+ + L H NLLVC+ FYP ++V+W RNGQEE AGVVS Sbjct: 114 VIESFTVQRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVS 173 Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 T LI NG WT+Q+LVML + G+VYTC+VEH SL S + VEWRAQS+SA S MLS Sbjct: 174 TGLIRNGDWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLS 230 >ref|XP_850395.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO beta chain precursor (MHC class II antigen DOB) isoform 1 [Canis familiaris] Length = 270 Score = 174 bits (440), Expect = 2e-43 Identities = 84/177 (47%), Positives = 109/177 (61%) Frame = +3 Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428 + V R I+ + A+T LG+PDA WNSQ +L +RA +D C HNY+ Sbjct: 51 QFVVRFIFNLEEYARFDSHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYE 110 Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608 + T+ R+VQP VT+ P ++ H NLL+C+ T FYP +K++WFRNGQEE GV+S Sbjct: 111 LGAPFTVGRKVQPEVTVYPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMS 170 Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 T LI NG WT+Q +VML M GDVYTC V H SL S + VEWRAQS + MLS Sbjct: 171 TGLIRNGDWTFQTMVMLEMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLS 227 >ref|XP_861384.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO beta chain precursor (MHC class II antigen DOB) isoform 2 [Canis familiaris] Length = 228 Score = 164 bits (414), Expect = 2e-40 Identities = 77/164 (46%), Positives = 101/164 (61%) Frame = +3 Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428 + V R I+ + A+T LG+PDA WNSQ +L +RA +D C HNY+ Sbjct: 51 QFVVRFIFNLEEYARFDSHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYE 110 Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608 + T+ R+VQP VT+ P ++ H NLL+C+ T FYP +K++WFRNGQEE GV+S Sbjct: 111 LGAPFTVGRKVQPEVTVYPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMS 170 Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEW 740 T LI NG WT+Q +VML M GDVYTC V H SL S + VEW Sbjct: 171 TGLIRNGDWTFQTMVMLEMTPELGDVYTCLVNHPSLLSPVSVEW 214 >ref|XP_850803.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO alpha chain precursor (MHC class II antigen DOA) (MHC DZ alpha) (MHC DN-alpha) isoform 11 [Canis familiaris] Length = 227 Score = 57.4 bits (137), Expect = 3e-08 Identities = 29/103 (28%), Positives = 45/103 (43%) Frame = +3 Query: 441 TTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLI 620 T L + P V + P L N+L+C + +P + + W RNGQ + GV T Sbjct: 82 THLSSPLPPRVAVLPKFRVELGQPNVLICIVDNIFPPVINITWLRNGQIISEGVAQTSFY 141 Query: 621 TNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQ 749 + ++ L D+Y C+VEH L+ +L W Q Sbjct: 142 SQPDHLFRKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRHWEPQ 184 >ref|XP_849737.1| PREDICTED: similar to HLA class II histocompatibility antigen, DM beta chain precursor (MHC class II antigen DMB) [Canis familiaris] Length = 263 Score = 55.5 bits (132), Expect = 1e-07 Identities = 35/127 (27%), Positives = 52/127 (40%), Gaps = 1/127 (0%) Frame = +3 Query: 363 SQNDLLHHNRAELDTACIHNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDF 542 +Q + LH + C + Q + R PTV ++ S +L C F Sbjct: 81 NQQEYLHQRLSNGLQDCATHTQSFWGSLTHRTRPPTVQVAKSTPFNTKESVMLACYVWGF 140 Query: 543 YPSQVKVQWFRNGQEETAGVVSTPLI-TNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQ 719 YP+ V + W +NGQ + + + NG WTYQ + L D YTC VEH Sbjct: 141 YPADVTISWRKNGQPVPSHSSALNMAQPNGDWTYQTVSHLATTPSYEDTYTCVVEHIGAP 200 Query: 720 SRILVEW 740 + +W Sbjct: 201 EPVCEDW 207 >ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] Length = 254 Score = 55.1 bits (131), Expect = 2e-07 Identities = 37/119 (31%), Positives = 50/119 (42%), Gaps = 1/119 (0%) Frame = +3 Query: 387 NRAELDTACIHNYQIEEST-TLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKV 563 ++A LDT I+ S T V P VT+ + L N+L+C F P + V Sbjct: 91 DKANLDT------MIKRSNHTPNTNVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINV 144 Query: 564 QWFRNGQEETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEW 740 W RNG T GV T + ++ L DVY C+VEH L +L W Sbjct: 145 TWLRNGNPVTTGVSETIFLPREDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHW 203 >ref|NP_001011726.1| MHC class II DLA DQalpha chain [Canis familiaris] Length = 255 Score = 53.9 bits (128), Expect = 4e-07 Identities = 27/103 (26%), Positives = 42/103 (40%) Frame = +3 Query: 465 PTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQ 644 P VT+ L N L+C + +P + V W +N T GV T G ++ Sbjct: 113 PEVTVFSKSPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFS 172 Query: 645 VLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNM 773 + L D+Y C+VEH L +L W + + S + Sbjct: 173 KISYLTFLPSAEDIYDCKVEHWGLDEPLLKHWEPEVPTPMSEL 215 >ref|XP_853335.1| PREDICTED: similar to T-cell surface glycoprotein CD1a precursor (CD1a antigen) (T-cell surface antigen T6/Leu-6) (hTa1 thymocyte antigen) [Canis familiaris] Length = 357 Score = 53.1 bits (126), Expect = 6e-07 Identities = 32/96 (33%), Positives = 49/96 (51%) Frame = +3 Query: 447 LQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITN 626 LQR+V+P +S + H L VC + FYP V V W R G++E G + + ++ N Sbjct: 199 LQRKVRPEAWLSAGSSPGPGHLRL-VCHVSGFYPKPVWVSWMR-GEQEQQGTLYSDILPN 256 Query: 627 GHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILV 734 T+ + V L + +CRV HSSL + +V Sbjct: 257 TDGTWYLQVSLDVKSKEAAGLSCRVRHSSLGGQDMV 292 >ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2 [Canis familiaris] Length = 125 Score = 49.7 bits (117), Expect = 7e-06 Identities = 25/92 (27%), Positives = 45/92 (48%) Frame = +3 Query: 465 PTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQ 644 P + + H N L C + F+P ++++ +NG+E A T L + WT+ Sbjct: 32 PKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAE--QTDLSFSKDWTFY 89 Query: 645 VLVMLHMNLHRGDVYTCRVEHSSLQSRILVEW 740 +LV + D ++CRV+H +L +V+W Sbjct: 90 LLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKW 121 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: 56,888,195 Number of Sequences: 33732 Number of extensions: 1550695 Number of successful extensions: 5635 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 4648 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): 5608 length of database: 19,266,565 effective HSP length: 106 effective length of database: 15,690,973 effective search space used: 5350621793 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-043651 (1343 letters) Database: RefSeqMP 45,328 sequences; 21,768,885 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 213 5e-55 Alignment gi|NP_034512.1| histocompatibility 2, class II antigen E beta [... 188 1e-47 Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 160 3e-39 Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 149 7e-36 Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 64 5e-10 Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 62 2e-09 Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 59 2e-08 Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 58 3e-08 Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 54 4e-07 Alignment gi|NP_032235.1| histocompatibility-2 complex class 1-like [Mus ... 53 6e-07 >ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus] Length = 265 Score = 213 bits (541), Expect = 5e-55 Identities = 124/232 (53%), Positives = 145/232 (62%), Gaps = 3/232 (1%) Frame = +3 Query: 93 ALRLPKGLWTAAVT--MMRGGAGCSGG*RHRLSTGFPVPF*VLSATSSDELTGCRLVAR* 266 AL++P L +AAV M+ G GG R F F + ++ R V R Sbjct: 2 ALQIPSLLLSAAVVVLMVLSSPGTEGGDSER---HFVYQF-MGECYFTNGTQRIRYVTRY 57 Query: 267 IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIEES-T 443 IY +RAVT LGRPDA WNSQ ++L RAELDT C HNY+ E+ T Sbjct: 58 IYNREEYVRYDSDVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHT 117 Query: 444 TLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLIT 623 +L+R QP V IS S EALNH N LVC+ TDFYP+Q+KV+WFRNGQEET GV ST LI Sbjct: 118 SLRRLEQPNVVISLSRTEALNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIR 177 Query: 624 NGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 NG WT+QVLVML M RG+VYTC VEH SL+S I VEWRAQSESA S MLS Sbjct: 178 NGDWTFQVLVMLEMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLS 229 >ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus] Length = 264 Score = 188 bits (477), Expect = 1e-47 Identities = 89/177 (50%), Positives = 117/177 (66%) Frame = +3 Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428 R + R Y +RAVT LGRPDA +WNSQ ++L RA +DT C HNY+ Sbjct: 52 RFLKRYFYNLEENLRFDSDVGEFRAVTELGRPDAENWNSQPEILDEKRAAVDTYCRHNYE 111 Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608 I ++ + RRV+PTVT+ P+ + L H NLLVC+ +DFYP ++V+WFRNG+EE G+VS Sbjct: 112 IFDNFLVPRRVEPTVTVYPTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVS 171 Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 T L+ NG WT+Q LVML G+VYTC+VEH SL + VEW+AQS SA + MLS Sbjct: 172 TGLVRNGDWTFQTLVMLETVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLS 228 >ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus] Length = 287 Score = 160 bits (405), Expect = 3e-39 Identities = 83/175 (47%), Positives = 107/175 (61%) Frame = +3 Query: 255 VAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIE 434 V R IY + AVT LGRP N+Q D+L + RA +D C +NY + Sbjct: 56 VTRFIYNQEEFARFNSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRASVDR-CRNNYDLV 114 Query: 435 ESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTP 614 + L + +P VT+ P+ + L H NLLVC+ DFYP ++V+WFRNG+EE GVVST Sbjct: 115 DIFMLNLKAEPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTG 174 Query: 615 LITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 LI N WTYQ LVML M G+VYTC+VEH SL S + VEWRA+S SA + +LS Sbjct: 175 LIQNRDWTYQTLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKLLS 229 >ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus] Length = 271 Score = 149 bits (376), Expect = 7e-36 Identities = 74/176 (42%), Positives = 100/176 (56%) Frame = +3 Query: 252 LVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQI 431 L+ R I+ + A+T LG PDA WN + DLL +RA ++ C Y++ Sbjct: 52 LLVRFIFNLEEYLHFDSDLGMFVALTELGEPDADQWNKRLDLLETSRAAVNMVCRQKYKL 111 Query: 432 EESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVST 611 T++R V P VT+ P L NLL+C+ T FYP + V+WFRNGQEE +GV+ST Sbjct: 112 GAPFTVERNVPPEVTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMST 171 Query: 612 PLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779 L+ NG WT+Q VML M GD+Y+C VEH L + V W AQSE + +LS Sbjct: 172 GLVRNGDWTFQTTVMLEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILS 227 >ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus] Length = 261 Score = 63.5 bits (153), Expect = 5e-10 Identities = 41/135 (30%), Positives = 58/135 (42%), Gaps = 8/135 (5%) Frame = +3 Query: 360 NSQNDLLHHNRAELDTACIHNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTD 539 N Q L+H + L H + T + R P+V ++ + +L C Sbjct: 81 NEQESLIHRLQNGLQDCATHTQPFWDVLTHRTRA-PSVRVAQTTPFNTREPVMLACYVWG 139 Query: 540 FYPSQVKVQWFRNGQ--------EETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTC 695 FYP+ V + W +NGQ E+TA NG WTYQ + L + GDVYTC Sbjct: 140 FYPADVTITWMKNGQLVPSHSNKEKTAQ-------PNGDWTYQTVSYLALTPSYGDVYTC 192 Query: 696 RVEHSSLQSRILVEW 740 V+HS I +W Sbjct: 193 VVQHSGTSEPIRGDW 207 >ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus] Length = 250 Score = 61.6 bits (148), Expect = 2e-09 Identities = 32/97 (32%), Positives = 44/97 (45%) Frame = +3 Query: 459 VQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWT 638 V P VT+ P L N+L+C D +P + V W RN Q T GV T + + Sbjct: 111 VPPRVTVLPKTRVELGKPNVLICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHR 170 Query: 639 YQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQ 749 ++ L DVY C+VEH L + +L W Q Sbjct: 171 FRKFHYLTFVPSAEDVYDCKVEHWGLDTPLLQHWEPQ 207 >ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus] Length = 261 Score = 58.5 bits (140), Expect = 2e-08 Identities = 40/135 (29%), Positives = 57/135 (42%), Gaps = 8/135 (5%) Frame = +3 Query: 360 NSQNDLLHHNRAELDTACIHNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTD 539 N + LL + L H + T + R P+V ++ + +L C Sbjct: 81 NKEESLLQRLQNGLLDCASHTQPFWNALTHRTRA-PSVRVAQTTPFNTREPVMLACYVWG 139 Query: 540 FYPSQVKVQWFRNGQ--------EETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTC 695 FYP+ V + W +NGQ E+TA NG WTYQ + L + GDVYTC Sbjct: 140 FYPADVTITWMKNGQLVPSHSNKEKTAQ-------PNGDWTYQTVSYLALTPSYGDVYTC 192 Query: 696 RVEHSSLQSRILVEW 740 V+HS I +W Sbjct: 193 VVQHSGTSEPIRGDW 207 >ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus] Length = 256 Score = 57.8 bits (138), Expect = 3e-08 Identities = 27/103 (26%), Positives = 44/103 (42%) Frame = +3 Query: 465 PTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQ 644 P T+ P L N L+C + +P + + W RN + GV T N +++ Sbjct: 114 PQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFH 173 Query: 645 VLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNM 773 L L D+Y C+VEH L+ +L W + + S + Sbjct: 174 KLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHWEPEIPAPMSEL 216 >ref|NP_034511.2| histocompatibility 2, class II antigen E alpha [Mus musculus] Length = 255 Score = 53.9 bits (128), Expect = 4e-07 Identities = 32/120 (26%), Positives = 49/120 (40%) Frame = +3 Query: 399 LDTACIHNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRN 578 +D A + + + T V P VT+ L N+L+C F P V V WFRN Sbjct: 90 VDKANLDVMKERSNNTPDANVAPEVTVLSRSPVNLGEPNILICFIDKFSPPVVNVTWFRN 149 Query: 579 GQEETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSES 758 G+ T GV T + ++ L D Y C V+H L+ + W + ++ Sbjct: 150 GRPVTEGVSETVFLPRDDHLFRKFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHWEFEEKT 209 >ref|NP_032235.1| histocompatibility-2 complex class 1-like [Mus musculus] Length = 341 Score = 53.1 bits (126), Expect = 6e-07 Identities = 32/125 (25%), Positives = 54/125 (43%), Gaps = 3/125 (2%) Frame = +3 Query: 354 SWNSQNDLLHHNRAELDTACI---HNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLV 524 +W + L + + L+ CI + TL+R P V + E Sbjct: 160 AWEANLHELQYQKNWLEEECIAWLKRFLEYGRDTLERTEHPVVRTT--RKETFPGITTFF 217 Query: 525 CAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTCRVE 704 C FYP ++ + W +NG+E V ++ +G TYQ + ++++ DVY+C VE Sbjct: 218 CRAHGFYPPEISMTWMKNGEEIAQEVDYGGVLPSGDGTYQTWLSVNLDPQSNDVYSCHVE 277 Query: 705 HSSLQ 719 H Q Sbjct: 278 HCGRQ 282 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: 64,832,815 Number of Sequences: 45328 Number of extensions: 1752607 Number of successful extensions: 6185 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 5084 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): 6138 length of database: 21,768,885 effective HSP length: 107 effective length of database: 16,918,789 effective search space used: 5752388260 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)