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-000186 (1101 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] 393 e-109 Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 380 e-105 Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 293 2e-79 Alignment gi|NP_001012698.2| major histocompatibility complex, class II, ... 292 4e-79 Alignment gi|XP_582099.2| PREDICTED: similar to major histocompatibility ... 266 3e-71 Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 254 6e-68 Alignment gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati... 243 2e-64 Alignment gi|XP_874766.1| PREDICTED: similar to HLA class II histocompati... 153 3e-37 Alignment gi|NP_001012399.1| hemochromatosis [Bos taurus] 73 5e-13 Alignment gi|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus] 72 6e-13 >ref|NP_001029840.2| MHC class II antigen [Bos taurus] Length = 261 Score = 393 bits (1010), Expect = e-109 Identities = 193/261 (73%), Positives = 215/261 (82%) Frame = +2 Query: 86 MSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLT 265 MSGMVAL +PRGLWTA + V LV+L P AEGRDSP+DFV QFK CYF NGT+RVR +T Sbjct: 1 MSGMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGLCYFTNGTERVRYVT 60 Query: 266 RYIYNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEG 445 RYIYNQEE+VRFDS+ YRA+TPLGRPDA+YWN QKD LEQTRAE DTVC+HNYQ E Sbjct: 61 RYIYNQEEYVRFDSDWDLYRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAELI 120 Query: 446 TTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLI 625 T+LQRRV+PTVTISPS+ EALNHHNLLVC+VTDFYPSQ+KV+WFRN +EETAGVVSTPLI Sbjct: 121 TSLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLI 180 Query: 626 RNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXX 805 RNGDWT+Q+LVMLEM QRGDVYTC VEH SLQSPI+VEWRAQSESAQSKMLS Sbjct: 181 RNGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLSGVGGFVL 240 Query: 806 XXXXXXXXXXXRHRSQKGLVR 868 HRSQKGL+R Sbjct: 241 GLIFLGLGLIIHHRSQKGLMR 261 >ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus] Length = 261 Score = 380 bits (976), Expect = e-105 Identities = 187/260 (71%), Positives = 211/260 (81%) Frame = +2 Query: 86 MSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLT 265 MSGMVALR+PRGLWTAA+ V L VL P AEGRDSPQD V F +CYF NGT+RVR +T Sbjct: 1 MSGMVALRIPRGLWTAAVMVTLAVLSTPGAEGRDSPQDTVVHFMGQCYFTNGTERVRYVT 60 Query: 266 RYIYNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEG 445 RYIYNQEE +DS+VGEYRAVT LGR A+YWN QKD+LEQTRAELDTVC+HNYQ+E Sbjct: 61 RYIYNQEETAYYDSDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEVI 120 Query: 446 TTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLI 625 T+LQR+V+PTVTIS S+ EALNHHNLLVC+VTDFYP Q+KV+WF+NG+EETAG+VSTPLI Sbjct: 121 TSLQRQVEPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLI 180 Query: 626 RNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXX 805 RNGDWT+Q+LVMLEM +RGDVYTC VEH SLQSPI VEWRAQSESAQSKMLS Sbjct: 181 RNGDWTFQILVMLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKMLSGVGGFVL 240 Query: 806 XXXXXXXXXXXRHRSQKGLV 865 R RSQKGLV Sbjct: 241 GLIFLGLGLIVRRRSQKGLV 260 >ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus] Length = 259 Score = 293 bits (749), Expect = 2e-79 Identities = 147/227 (64%), Positives = 175/227 (77%), Gaps = 2/227 (0%) Frame = +2 Query: 110 LPRGLWTAALTVMLV--VLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYIYNQ 283 +PR T A VM V VL P A RD+P++FVYQFK CYF NGT+ VRL+ R IYN+ Sbjct: 5 IPRNPGTVAGMVMAVFLVLRIPEAHCRDAPKNFVYQFKGMCYFTNGTEHVRLVARQIYNK 64 Query: 284 EEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTLQRR 463 EE + FDS++GE+ AVT LGR A+ WN QKD+L + RA +DT+C+HNY+ G T+QRR Sbjct: 65 EEILHFDSDLGEFVAVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYKETAGFTVQRR 124 Query: 464 VQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 643 V+PTVT+SP+ EALNHHNLLVC+VTDFYP QVKV+WFRN QE+TAGV TPL +NGDWT Sbjct: 125 VEPTVTVSPASTEALNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGFTPLTQNGDWT 184 Query: 644 YQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLS 784 YQ+ VMLE Q GDVY C V+H SLQSPI VEWRAQSESAQSKM S Sbjct: 185 YQIHVMLETVPQLGDVYVCHVDHPSLQSPITVEWRAQSESAQSKMQS 231 >ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus] Length = 266 Score = 292 bits (747), Expect = 4e-79 Identities = 144/255 (56%), Positives = 178/255 (69%) Frame = +2 Query: 95 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYI 274 MV L G W AAL VML+VL P+A R+ F+ +K EC+FFNGT+RVR L R+ Sbjct: 1 MVCLYFSGGSWMAALIVMLMVLCPPLAWAREIQPHFLEYYKGECHFFNGTERVRFLDRHF 60 Query: 275 YNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTL 454 YN EE VRFDS+ GE+RAVT LGRP A++WN QKD LEQ RAE+D VC+HNY E T+ Sbjct: 61 YNGEEFVRFDSDWGEFRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTV 120 Query: 455 QRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNG 634 QRRV+PTVT+ P+K + L HHNLLVC+V FYP ++V+WFRNG EE AGV+ST LI+NG Sbjct: 121 QRRVEPTVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNG 180 Query: 635 DWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXXXXX 814 DWT+Q +VMLE Q G+VYTC+V+H SPI VEWRA+S+SAQSKM+S Sbjct: 181 DWTFQTMVMLETVPQSGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMSGVGGFVLGLL 240 Query: 815 XXXXXXXXRHRSQKG 859 R+QKG Sbjct: 241 FLAVGLFIYFRNQKG 255 >ref|XP_582099.2| PREDICTED: similar to major histocompatibility complex, class II, DR beta 5 precursor [Bos taurus] Length = 255 Score = 266 bits (679), Expect = 3e-71 Identities = 125/218 (57%), Positives = 162/218 (74%) Frame = +2 Query: 131 AALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYIYNQEEHVRFDSN 310 AAL V+L+VL P + R++ F++QFK EC F NG +R+R RYIYN +E V FDS+ Sbjct: 2 AALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDSD 61 Query: 311 VGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTLQRRVQPTVTISP 490 VGE+ A+T LGR DA+YWN QKD +EQ RA++DT+C+ NYQ QRRV+PTVT+ P Sbjct: 62 VGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVYP 121 Query: 491 SKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQVLVMLEM 670 +K + L HHNLLVC+V FYP ++V+WF N EE AGV+ST LI+NGDWT+Q +VMLE Sbjct: 122 AKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQNGDWTFQTMVMLET 181 Query: 671 NLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLS 784 Q G+VYTC+VEH S SP+ VEWRAQS+SAQ K++S Sbjct: 182 VPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQRKLMS 219 >ref|NP_001013618.1| major histocompatibility complex, class II, DO beta [Bos taurus] Length = 271 Score = 254 bits (650), Expect = 6e-68 Identities = 117/220 (53%), Positives = 157/220 (71%) Frame = +2 Query: 125 WTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYIYNQEEHVRFD 304 W + L A V +GRDSP+DFV Q K +CYF NGT++VR + R+I+N E++ RFD Sbjct: 8 WVVTFLSTALRLDASVTQGRDSPEDFVTQAKADCYFTNGTEKVRFVVRFIFNLEDYARFD 67 Query: 305 SNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTLQRRVQPTVTI 484 S++G + A+T LG+PDA+ WN + D+L ++RA +D +C+ NY + T+ RRVQP VT+ Sbjct: 68 SDLGMFVALTELGKPDAERWNNRPDILARSRASVDMLCRRNYYLGAPFTVGRRVQPEVTV 127 Query: 485 SPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQVLVML 664 P K AL H NLL+C VT FYP +KV WFRNGQE+ G++ST LIRNGDWT+Q+ VML Sbjct: 128 YPEKTPALQHRNLLLCLVTGFYPGDIKVTWFRNGQEQREGIMSTGLIRNGDWTFQMTVML 187 Query: 665 EMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLS 784 M + G+VYTC V+H SL SP+ VEWRAQSE + K+LS Sbjct: 188 AMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILS 227 >ref|XP_876139.1| PREDICTED: similar to H-2 class II histocompatibility antigen, I-E beta chain precursor [Bos taurus] Length = 269 Score = 243 bits (620), Expect = 2e-64 Identities = 117/192 (60%), Positives = 141/192 (73%) Frame = +2 Query: 209 QFKFECYFFNGTQRVRLLTRYIYNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLE 388 Q K EC+F NGTQ+VR L RYIYN+EE V+FDS VGEYRA T +GRP A+ WN L+ Sbjct: 3 QGKSECHFSNGTQQVRFLDRYIYNREEQVQFDSLVGEYRARTEMGRPAAERWNRWPQALQ 62 Query: 389 QTRAELDTVCKHNYQIEEGTTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKV 568 + RA + C NY+ T+QRRVQPTVT+ P K+ L HHNLLVC+V FYP ++V Sbjct: 63 RARAAVHAYCASNYEFFASRTVQRRVQPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEV 122 Query: 569 QWFRNGQEETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWR 748 +WFRNGQEE AGVVST LI NGDWT+Q++VMLE+ Q G+VY C VEH S SP+ VEWR Sbjct: 123 RWFRNGQEEEAGVVSTGLIPNGDWTFQIMVMLEIVPQGGEVYACHVEHPSRTSPVTVEWR 182 Query: 749 AQSESAQSKMLS 784 AQ ES+Q KMLS Sbjct: 183 AQDESSQEKMLS 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 = 153 bits (386), Expect = 3e-37 Identities = 73/137 (53%), Positives = 96/137 (70%) Frame = +2 Query: 449 TLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIR 628 TLQ++V+PTVT+ P+K + L H++LLVC+V FY V+V+WF GQEE AGV+ST LI+ Sbjct: 90 TLQKKVEPTVTVYPAKTQPLQHNHLLVCSVNGFYLGHVEVRWFWKGQEEEAGVISTGLIQ 149 Query: 629 NGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXXX 808 NGDWT++ +VMLE LQ G+VYTC++EH S +SPI EWRAQS+SAQSKM+S Sbjct: 150 NGDWTFETIVMLETVLQSGEVYTCQLEHPSWRSPIAEEWRAQSDSAQSKMMSGTGGFALG 209 Query: 809 XXXXXXXXXXRHRSQKG 859 R+QKG Sbjct: 210 LLFLVVGLFTHFRNQKG 226 >ref|NP_001012399.1| hemochromatosis [Bos taurus] Length = 356 Score = 72.8 bits (177), Expect = 5e-13 Identities = 47/165 (28%), Positives = 76/165 (46%), Gaps = 5/165 (3%) Frame = +2 Query: 266 RYIYNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCK----HNYQ 433 +Y Y+ ++H+ F ++RA P + W K +Q RA LD C H + Sbjct: 145 KYGYDGQDHLEFRPETLDWRAAEPRAQVTKLEWEVNKIRAKQNRAYLDRDCPEQLLHLLE 204 Query: 434 IEEGTTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVS 613 + G L+++V P V ++ +L L C +FYP + ++W ++ Q A + Sbjct: 205 LGRGP-LEQQVPPLVKVTHHVTSSLT---TLRCRALNFYPQNITIRWLKDKQFLDAKEIK 260 Query: 614 TP-LIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEW 745 ++ NGD TYQ V L M Y+C+VEH L P+ W Sbjct: 261 PEDVLPNGDGTYQAWVALAMLPGEEQRYSCQVEHPGLDQPLTATW 305 >ref|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus] Length = 299 Score = 72.4 bits (176), Expect = 6e-13 Identities = 50/198 (25%), Positives = 87/198 (43%), Gaps = 5/198 (2%) Frame = +2 Query: 182 RDSPQDFVYQFKFECYFFNGTQRVRLLTRYIYNQEEHVRFDSNVGEYRAVTPLGRPDADY 361 +D +Q F C N + Y Y+ ++ ++FD + + + P + Sbjct: 106 KDREGSHTFQGAFGCELRNN-ESSGAFWGYAYDGQDFIKFDKEIPAWVPLDPAAQNTKRK 164 Query: 362 WNGQKDVLEQTRAELDTVCK---HNYQIEEGTTLQRRVQPTVTISPSKAEALNHHNLLVC 532 W + +++ +A L+ C Y T L R+ P+V+++ A H L C Sbjct: 165 WEAEAVYVQRAKAYLEEECPGMLRRYLPYSRTHLDRQESPSVSVTGHAAPG--HKRTLKC 222 Query: 533 AVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEH 712 DFYP + + W R G + A ++ +G+ TYQ V++ + + Y+C VEH Sbjct: 223 LAYDFYPRSIGLHWTRAGDAQEAES-GGDVLPSGNGTYQSWVVVGVPPEDQAPYSCHVEH 281 Query: 713 SSLQSPILVEW--RAQSE 760 SL P+ V W R Q+E Sbjct: 282 RSLTRPLTVPWDPRQQAE 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: 38,933,739 Number of Sequences: 33508 Number of extensions: 1082592 Number of successful extensions: 4664 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 3949 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): 4616 length of database: 16,112,626 effective HSP length: 103 effective length of database: 12,661,302 effective search space used: 3329922426 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-000186 (1101 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] 73 1e-14 Alignment gi|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] 59 2e-10 Alignment gi|NP_998996.1| CD1 antigen [Sus scrofa] 58 5e-10 Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 56 1e-09 Alignment gi|NP_998993.1| IgG heavy chain [Sus scrofa] 46 1e-06 >ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] Length = 401 Score = 73.2 bits (178), Expect = 1e-14 Identities = 49/185 (26%), Positives = 83/185 (44%), Gaps = 5/185 (2%) Frame = +2 Query: 206 YQFKFECYFFNGTQRVRLLTRYIYNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVL 385 YQ+ CY + +R +++ Y+ +++ + ++ + AV + W ++ V Sbjct: 116 YQWLCGCYVARDGRLLRGYSQFAYDGADYIVLNEDLRSWTAVGMAAQITRRKWE-EETVA 174 Query: 386 EQTRAELDTVCK---HNYQIEEGTTLQRRVQPT--VTISPSKAEALNHHNLLVCAVTDFY 550 EQ+RA L+ C H Y TLQR P VT PS + L C FY Sbjct: 175 EQSRAYLEVACVQSLHRYLANGKETLQRSDPPKTHVTRHPSSDNKVT----LRCWALGFY 230 Query: 551 PSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSP 730 P ++ + W + GQ+++ V +GD T++ L + YTC V+H LQ P Sbjct: 231 PKEISLTWQQEGQDQSQDVEVVETRPSGDGTFRKWAALVVPPGEEQSYTCHVQHEGLQEP 290 Query: 731 ILVEW 745 + + W Sbjct: 291 LTLRW 295 >ref|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] Length = 356 Score = 59.3 bits (142), Expect = 2e-10 Identities = 41/169 (24%), Positives = 77/169 (45%), Gaps = 3/169 (1%) Frame = +2 Query: 269 YIYNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNY--QIEE 442 + N EE ++FD+ +G + P R W + D + + + L C H +E Sbjct: 133 FALNGEEFMKFDTKLGTWDGEWPEARTIGSKWMQEPDAVNKEKTFLLYSCPHRLLGHLER 192 Query: 443 GT-TLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTP 619 G L+ + P++ + A ++L C FYP ++++++ RNG AG + Sbjct: 193 GRGNLEWKEPPSMRMKARPGTAPGF-SVLTCIAFSFYPPELQLRFLRNGL--AAGSGESD 249 Query: 620 LIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESA 766 + NGD ++ L + Y C V+H+ L P+ VE + ++S+ Sbjct: 250 IGPNGDGSFHAWSSLTVKSGDEHHYCCVVQHAGLAQPLTVELESPAKSS 298 >ref|NP_998996.1| CD1 antigen [Sus scrofa] Length = 339 Score = 57.8 bits (138), Expect = 5e-10 Identities = 36/103 (34%), Positives = 54/103 (52%), Gaps = 1/103 (0%) Frame = +2 Query: 452 LQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRN 631 LQR+V+P +S S H +LVC V+ FYP + V W R+ QE+ G ++ N Sbjct: 199 LQRQVRPEAWLS-SGPNPSPGHLMLVCHVSGFYPKPIWVMWMRDEQEQ-PGTQQGDILPN 256 Query: 632 GDWTYQVLVMLEMNLQRGDVYTCRVEHSSL-QSPILVEWRAQS 757 D T+ + V L++ +CRV+HSSL I++ W S Sbjct: 257 ADGTWYLRVTLDVAAGEASGLSCRVKHSSLGGQDIILYWEQHS 299 >ref|NP_999143.1| beta 2-microglobulin [Sus scrofa] Length = 118 Score = 56.2 bits (134), Expect = 1e-09 Identities = 29/93 (31%), Positives = 49/93 (52%), Gaps = 7/93 (7%) Frame = +2 Query: 488 PSKAEALNHH-------NLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTY 646 P K + + H N L C V+ F+P Q+++ +NG++ A + L + DW++ Sbjct: 24 PPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSF 81 Query: 647 QVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEW 745 +LV E D Y+CRV+H +L P +V+W Sbjct: 82 YLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 114 >ref|NP_998993.1| IgG heavy chain [Sus scrofa] Length = 474 Score = 46.2 bits (108), Expect = 1e-06 Identities = 30/92 (32%), Positives = 44/92 (47%), Gaps = 5/92 (5%) Frame = +2 Query: 467 QPTVTISPSKAEALNHHNLLV-CAVTDFYPSQVKVQWFRNGQEETAG-VVSTPLIRNGDW 640 +P V P AE L+ + V C V FYP + V+W NGQ E G +TP ++ D Sbjct: 370 EPQVYTLPPPAEELSRSKVTVTCLVIGFYPPDIHVEWKSNGQPEPEGNYRTTPPQQDVDG 429 Query: 641 T---YQVLVMLEMNLQRGDVYTCRVEHSSLQS 727 T Y L + + G+ + C V H +L + Sbjct: 430 TFFLYSKLAVDKARWDHGETFECAVMHEALHN 461 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: 1,027,841 Number of Sequences: 1040 Number of extensions: 27248 Number of successful extensions: 110 Number of sequences better than 1.0e-05: 5 Number of HSP's better than 0.0 without gapping: 96 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): 107 length of database: 434,620 effective HSP length: 78 effective length of database: 353,500 effective search space used: 101808000 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-000186 (1101 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 ... 373 e-103 Alignment gi|NP_872355.1| major histocompatibility complex, class II, DQ ... 325 5e-89 Alignment gi|NP_002115.1| major histocompatibility complex, class II, DR ... 320 2e-87 Alignment gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati... 310 1e-84 Alignment gi|NP_002116.2| major histocompatibility complex, class II, DR ... 307 9e-84 Alignment gi|NP_068818.4| major histocompatibility complex, class II, DR ... 301 5e-82 Alignment gi|NP_002112.3| major histocompatibility complex, class II, DP ... 300 1e-81 Alignment gi|NP_072049.2| major histocompatibility complex, class II, DR ... 291 9e-79 Alignment gi|XP_949921.1| PREDICTED: similar to HLA class II histocompati... 290 1e-78 Alignment gi|XP_949915.1| PREDICTED: similar to HLA class II histocompati... 284 1e-76 >ref|NP_002114.2| major histocompatibility complex, class II, DQ beta 1 precursor [Homo sapiens] Length = 261 Score = 373 bits (957), Expect = e-103 Identities = 184/260 (70%), Positives = 210/260 (80%) Frame = +2 Query: 86 MSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLT 265 MS ALR+P GL A +T+ML +L PVAEGRDSP+DFVYQFK CYF NGT+RVRL++ Sbjct: 1 MSWKKALRIPGGLRAATVTLMLSMLSTPVAEGRDSPEDFVYQFKGMCYFTNGTERVRLVS 60 Query: 266 RYIYNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEG 445 R IYN+EE VRFDS+VGE+RAVT LG P A+YWN QKD+LE+ RA +D VC+HNYQ+E Sbjct: 61 RSIYNREEIVRFDSDVGEFRAVTLLGLPAAEYWNSQKDILERKRAAVDRVCRHNYQLELR 120 Query: 446 TTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLI 625 TTLQRRV+PTVTISPS+ EALNHHNLLVC+VTDFYP+Q+KV+WFRN QEETAGVVSTPLI Sbjct: 121 TTLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPAQIKVRWFRNDQEETAGVVSTPLI 180 Query: 626 RNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXX 805 RNGDWT+Q+LVMLEM QRGDVYTC VEH SLQSPI VEWRAQSESAQSKMLS Sbjct: 181 RNGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGIGGFVL 240 Query: 806 XXXXXXXXXXXRHRSQKGLV 865 HRSQKGL+ Sbjct: 241 GLIFLGLGLIIHHRSQKGLL 260 >ref|NP_872355.1| major histocompatibility complex, class II, DQ beta 2 [Homo sapiens] Length = 231 Score = 325 bits (832), Expect = 5e-89 Identities = 156/221 (70%), Positives = 184/221 (83%) Frame = +2 Query: 86 MSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLT 265 MS +AL++P G W AA+TVMLV+L PVAE RD P+DF+ QFK CYF NGT+RVR + Sbjct: 1 MSWKMALQIPGGFWAAAVTVMLVMLSTPVAEARDFPKDFLVQFKGMCYFTNGTERVRGVA 60 Query: 266 RYIYNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEG 445 RYIYN+EE+ RFDS+VGE++AVT LGR D WN KD LEQ RA +D VC+HNY+ E Sbjct: 61 RYIYNREEYGRFDSDVGEFQAVTELGRSIED-WNNYKDFLEQERAAVDKVCRHNYEAELR 119 Query: 446 TTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLI 625 TTLQR+V+PTVTISPS+ EALNHHNLLVC+VTDFYP+Q+KVQWFRN QEETAGVVST LI Sbjct: 120 TTLQRQVEPTVTISPSRTEALNHHNLLVCSVTDFYPAQIKVQWFRNDQEETAGVVSTSLI 179 Query: 626 RNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWR 748 RNGDWT+Q+LVMLE+ QRGD+YTC+VEH SLQSPI VEWR Sbjct: 180 RNGDWTFQILVMLEITPQRGDIYTCQVEHPSLQSPITVEWR 220 >ref|NP_002115.1| major histocompatibility complex, class II, DR beta 1 precursor [Homo sapiens] Length = 266 Score = 320 bits (819), Expect = 2e-87 Identities = 157/255 (61%), Positives = 190/255 (74%) Frame = +2 Query: 95 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYI 274 MV L+LP G ALTV L+VL +P+A D+ F++Q KFEC+FFNGT+RVRLL R I Sbjct: 1 MVCLKLPGGSCMTALTVTLMVLSSPLALAGDTRPRFLWQLKFECHFFNGTERVRLLERCI 60 Query: 275 YNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTL 454 YNQEE VRFDS+VGEYRAVT LGRPDA+YWN QKD+LEQ RA +DT C+HNY + E T+ Sbjct: 61 YNQEESVRFDSDVGEYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTV 120 Query: 455 QRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNG 634 QRRV+P VT+ PSK + L HHNLLVC+V+ FYP ++V+WFRNGQEE AGVVST LI+NG Sbjct: 121 QRRVEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 635 DWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXXXXX 814 DWT+Q LVMLE + G+VYTC+VEH S+ SP+ VEWRA+SESAQSKMLS Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240 Query: 815 XXXXXXXXRHRSQKG 859 R+QKG Sbjct: 241 FLGAGLFIYFRNQKG 255 >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 = 310 bits (795), Expect = 1e-84 Identities = 155/255 (60%), Positives = 188/255 (73%) Frame = +2 Query: 95 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYI 274 MV L+LP G AALTV L+VL +P+A D+ F+ Q KFEC+FFNGT+RVR L R I Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60 Query: 275 YNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTL 454 YNQEE+VRFDS+VGEYRAVT LGRP A+ WN QKD LE+ RAE+DTVC+HNY + E T+ Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120 Query: 455 QRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNG 634 QRRV P VT+ P+K + L HHNLLVC+V+ FYP ++V+WFRNGQEE AGVVST LI+NG Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 635 DWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXXXXX 814 DWT+Q LVMLE + G+VYTC+VEH S+ SP+ VEWRA+SESAQSKMLS Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240 Query: 815 XXXXXXXXRHRSQKG 859 R+QKG Sbjct: 241 FLGAGLFIYFRNQKG 255 >ref|NP_002116.2| major histocompatibility complex, class II, DR beta 5 precursor [Homo sapiens] Length = 266 Score = 307 bits (787), Expect = 9e-84 Identities = 147/230 (63%), Positives = 180/230 (78%) Frame = +2 Query: 95 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYI 274 MV L+LP G + A LTV L+VL +P+A D+ F+ Q K+EC+FFNGT+RVR L R I Sbjct: 1 MVCLKLPGGSYMAKLTVTLMVLSSPLALAGDTRPRFLQQDKYECHFFNGTERVRFLHRDI 60 Query: 275 YNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTL 454 YNQEE +RFDS+VGEYRAVT LGRPDA+YWN QKD LE RA +DT C+HNY + E T+ Sbjct: 61 YNQEEDLRFDSDVGEYRAVTELGRPDAEYWNSQKDFLEDRRAAVDTYCRHNYGVGESFTV 120 Query: 455 QRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNG 634 QRRV+P VT+ P++ + L HHNLLVC+V FYP ++V+WFRN QEE AGVVST LI+NG Sbjct: 121 QRRVEPKVTVYPARTQTLQHHNLLVCSVNGFYPGSIEVRWFRNSQEEKAGVVSTGLIQNG 180 Query: 635 DWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLS 784 DWT+Q LVMLE + G+VYTC+VEH S+ SP+ VEWRAQSESAQSKMLS Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRAQSESAQSKMLS 230 >ref|NP_068818.4| major histocompatibility complex, class II, DR beta 4 precursor [Homo sapiens] Length = 266 Score = 301 bits (772), Expect = 5e-82 Identities = 148/255 (58%), Positives = 185/255 (72%) Frame = +2 Query: 95 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYI 274 MV L+LP G AALTV L VL +P+A D+ F+ Q K EC+F NGT+RV L RYI Sbjct: 1 MVCLKLPGGSCMAALTVTLTVLSSPLALAGDTQPRFLEQAKCECHFLNGTERVWNLIRYI 60 Query: 275 YNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTL 454 YNQEE+ R++S++GEY+AVT LGRPDA+YWN QKD+LE+ RAE+DT C++NY + E T+ Sbjct: 61 YNQEEYARYNSDLGEYQAVTELGRPDAEYWNSQKDLLERRRAEVDTYCRYNYGVVESFTV 120 Query: 455 QRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNG 634 QRRVQP VT+ PSK + L HHNLLVC+V FYP ++V+WFRNGQEE AGVVST LI+NG Sbjct: 121 QRRVQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 635 DWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXXXXX 814 DWT+Q LVMLE + G+VYTC+VEH S+ SP+ V+W A+SESAQSKMLS Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLSGVGGFVLGLL 240 Query: 815 XXXXXXXXRHRSQKG 859 R+QKG Sbjct: 241 FLGTGLFIYFRNQKG 255 >ref|NP_002112.3| major histocompatibility complex, class II, DP beta 1 precursor [Homo sapiens] Length = 258 Score = 300 bits (769), Expect = 1e-81 Identities = 144/230 (62%), Positives = 181/230 (78%) Frame = +2 Query: 95 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYI 274 M+ L++ T ALT +L+VL V +GR +P+++++Q + ECY FNGTQR L RYI Sbjct: 1 MMVLQVSAAPRTVALTALLMVLLTSVVQGRATPENYLFQGRQECYAFNGTQR--FLERYI 58 Query: 275 YNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTL 454 YN+EE RFDS+VGE+RAVT LGRP A+YWN QKD+LE+ RA D +C+HNY++ TL Sbjct: 59 YNREEFARFDSDVGEFRAVTELGRPAAEYWNSQKDILEEKRAVPDRMCRHNYELGGPMTL 118 Query: 455 QRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNG 634 QRRVQP V +SPSK L HHNLLVC VTDFYP ++V+WF NGQEETAGVVST LIRNG Sbjct: 119 QRRVQPRVNVSPSKKGPLQHHNLLVCHVTDFYPGSIQVRWFLNGQEETAGVVSTNLIRNG 178 Query: 635 DWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLS 784 DWT+Q+LVMLEM Q+GDVYTC+VEH+SL SP+ VEW+AQS+SA+SK L+ Sbjct: 179 DWTFQILVMLEMTPQQGDVYTCQVEHTSLDSPVTVEWKAQSDSARSKTLT 228 >ref|NP_072049.2| major histocompatibility complex, class II, DR beta 3 precursor [Homo sapiens] Length = 266 Score = 291 bits (744), Expect = 9e-79 Identities = 146/255 (57%), Positives = 180/255 (70%) Frame = +2 Query: 95 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYI 274 MV L+LP G AALTV L+VL + +A D+ F+ K EC+FFNGT+RVR L RY Sbjct: 1 MVCLKLPGGSSLAALTVTLMVLSSRLAFAGDTRPRFLELRKSECHFFNGTERVRYLDRYF 60 Query: 275 YNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTL 454 +NQEE +RFDS+VGEYRAVT LGRP A+ WN QKD+LEQ R +D C+HNY + E T+ Sbjct: 61 HNQEEFLRFDSDVGEYRAVTELGRPVAESWNSQKDLLEQKRGRVDNYCRHNYGVGESFTV 120 Query: 455 QRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNG 634 QRRV P VT+ P+K + L HHNLLVC+V+ FYP ++V+WFRNGQEE AGVVST LI+NG Sbjct: 121 QRRVHPQVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 635 DWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXXXXX 814 DWT+Q LVMLE + G+VYTC+VEH S+ S + VEWRA+SESAQSKMLS Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSALTVEWRARSESAQSKMLSGVGGFVLGLL 240 Query: 815 XXXXXXXXRHRSQKG 859 R+QKG Sbjct: 241 FLGAGLFIYFRNQKG 255 >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 = 290 bits (742), Expect = 1e-78 Identities = 140/220 (63%), Positives = 171/220 (77%) Frame = +2 Query: 95 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYI 274 MV L+LP G AALTV L+VL +P+A D+ F+ Q KFEC+FFNGT+RVR L R I Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60 Query: 275 YNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTL 454 YNQEE+VRFDS+VGEYRAVT LGRP A+ WN QKD LE+ RAE+DTVC+HNY + E T+ Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120 Query: 455 QRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNG 634 QRRV P VT+ P+K + L HHNLLVC+V+ FYP ++V+WFRNGQEE AGVVST LI+NG Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 635 DWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQ 754 DWT+Q LVMLE + G+VYTC+VEH S+ SP+ VEW Q Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWSEQ 220 >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 = 284 bits (726), Expect = 1e-76 Identities = 138/220 (62%), Positives = 166/220 (75%) Frame = +2 Query: 200 FVYQFKFECYFFNGTQRVRLLTRYIYNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKD 379 F+ Q KFEC+FFNGT+RVR L R IYNQEE+VRFDS+VGEYRAVT LGRP A+ WN QKD Sbjct: 54 FLKQDKFECHFFNGTERVRYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKD 113 Query: 380 VLEQTRAELDTVCKHNYQIEEGTTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQ 559 LE+ RAE+DTVC+HNY + E T+QRRV P VT+ P+K + L HHNLLVC+V+ FYP Sbjct: 114 FLERRRAEVDTVCRHNYGVGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGS 173 Query: 560 VKVQWFRNGQEETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILV 739 ++V+WFRNGQEE AGVVST LI+NGDWT+Q LVMLE + G+VYTC+VEH S+ SP+ V Sbjct: 174 IEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTV 233 Query: 740 EWRAQSESAQSKMLSXXXXXXXXXXXXXXXXXXRHRSQKG 859 EWRA+SESAQSKMLS R+QKG Sbjct: 234 EWRARSESAQSKMLSGVGGFVLGLLFLGAGLFIYFRNQKG 273 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: 44,356,564 Number of Sequences: 39411 Number of extensions: 1279233 Number of successful extensions: 5872 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 4739 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): 5805 length of database: 17,774,539 effective HSP length: 103 effective length of database: 13,715,206 effective search space used: 3607099178 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-000186 (1101 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... 390 e-108 Alignment gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami... 306 2e-83 Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 271 8e-73 Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 258 9e-69 Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 73 6e-13 Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 69 8e-12 Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 67 2e-11 Alignment gi|NP_001011726.1| MHC class II DLA DQalpha chain [Canis famili... 65 2e-10 Alignment gi|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein... 63 4e-10 Alignment gi|XP_853335.1| PREDICTED: similar to T-cell surface glycoprote... 59 6e-09 >ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris] Length = 269 Score = 390 bits (1002), Expect = e-108 Identities = 188/258 (72%), Positives = 214/258 (82%) Frame = +2 Query: 86 MSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLT 265 MSG + L +PRG WTAA+ ++LVVL PVAEGRDSPQDFV+Q+K ECYF NGT+RVRLLT Sbjct: 1 MSGKMTLCIPRGFWTAAVMMILVVLSIPVAEGRDSPQDFVFQYKAECYFTNGTERVRLLT 60 Query: 266 RYIYNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEG 445 +YIYN+EE VRFDS+VGE+RAVT LGRPDA+YWN QKD +++ RAELDTVC+HNY EE Sbjct: 61 KYIYNREEFVRFDSDVGEFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREEL 120 Query: 446 TTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLI 625 TTLQRRV+PTVTI PSK E LNHHNLLVC+VTDFYP Q+KV+WFRN QE+TAGVVSTPLI Sbjct: 121 TTLQRRVEPTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLI 180 Query: 626 RNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXX 805 RNGDWT+Q+LVMLEM QRGDVYTC VEH+SLQSPI V+WRAQSESAQSKMLS Sbjct: 181 RNGDWTFQILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLSGIGGFVL 240 Query: 806 XXXXXXXXXXXRHRSQKG 859 RHRSQKG Sbjct: 241 GLIFLGLGLIIRHRSQKG 258 >ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris] Length = 266 Score = 306 bits (784), Expect = 2e-83 Identities = 150/255 (58%), Positives = 184/255 (72%) Frame = +2 Query: 95 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYI 274 MV L G W AL ++L+VL P A RD+P F+ K ECYF NGT+RVR + RYI Sbjct: 1 MVCLCFLGGSWMTALMLILMVLNPPFAWARDTPPHFLEVAKSECYFTNGTERVRFVERYI 60 Query: 275 YNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTL 454 +N+EE VRFDS+VGE+RAVT LGRP A+ WNGQK++LEQ RA +DT C+HNY + E T+ Sbjct: 61 HNREEFVRFDSDVGEFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYGVIESFTV 120 Query: 455 QRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNG 634 QRRV+PTVT+ P+K + L HHNLLVC+V FYP ++V+W RNGQEE AGVVST LIRNG Sbjct: 121 QRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNG 180 Query: 635 DWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXXXXX 814 DWT+Q+LVMLE+ Q G+VYTC+VEH SL SP+ VEWRAQS+SAQSKMLS Sbjct: 181 DWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLSGIGGFVLGLL 240 Query: 815 XXXXXXXXRHRSQKG 859 R+QKG Sbjct: 241 FLAVGLFIYFRNQKG 255 >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 = 271 bits (693), Expect = 8e-73 Identities = 126/247 (51%), Positives = 170/247 (68%) Frame = +2 Query: 125 WTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYIYNQEEHVRFD 304 W AL V + L + + +GRDSP+DFV Q K +CYF NGT++V+ + R+I+N EE+ RFD Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67 Query: 305 SNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTLQRRVQPTVTI 484 S+VG + A+T LG+PDA+ WN Q +LE++RA +D +C+HNY++ T+ R+VQP VT+ Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127 Query: 485 SPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQVLVML 664 P + ++ HHNLL+C+VT FYP +K++WFRNGQEE GV+ST LIRNGDWT+Q +VML Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187 Query: 665 EMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXXXXXXXXXXXXXRH 844 EM + GDVYTC V H SL SP+ VEWRAQS + KMLS Sbjct: 188 EMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLSGIAAFLLGLIFLLVGTVICL 247 Query: 845 RSQKGLV 865 R+QKG V Sbjct: 248 RAQKGYV 254 >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 = 258 bits (658), Expect = 9e-69 Identities = 113/207 (54%), Positives = 155/207 (74%) Frame = +2 Query: 125 WTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYIYNQEEHVRFD 304 W AL V + L + + +GRDSP+DFV Q K +CYF NGT++V+ + R+I+N EE+ RFD Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67 Query: 305 SNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTLQRRVQPTVTI 484 S+VG + A+T LG+PDA+ WN Q +LE++RA +D +C+HNY++ T+ R+VQP VT+ Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127 Query: 485 SPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQVLVML 664 P + ++ HHNLL+C+VT FYP +K++WFRNGQEE GV+ST LIRNGDWT+Q +VML Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187 Query: 665 EMNLQRGDVYTCRVEHSSLQSPILVEW 745 EM + GDVYTC V H SL SP+ VEW Sbjct: 188 EMTPELGDVYTCLVNHPSLLSPVSVEW 214 >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 = 72.8 bits (177), Expect = 6e-13 Identities = 55/187 (29%), Positives = 83/187 (44%), Gaps = 1/187 (0%) Frame = +2 Query: 188 SPQDFVYQFKFECYFFNGTQRVRLLTRYIYNQEEHVRFDSNVGEYRAVTPLGRPDADYWN 367 +P+DF Y C FN LLT + ++ + V + E+ + L +DY N Sbjct: 36 TPKDFTY-----CVSFNKD----LLTCWDPDEAKMVPY-----EFGTLNVLANYLSDYLN 81 Query: 368 GQKDVLEQTRAELDTVCKHNYQIEEGTTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDF 547 Q++ L Q + C + Q G+ R PTV ++ S +L C V F Sbjct: 82 -QQEYLHQRLSNGLQDCATHTQSFWGSLTHRTRPPTVQVAKSTPFNTKESVMLACYVWGF 140 Query: 548 YPSQVKVQWFRNGQEETAGVVSTPLIR-NGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQ 724 YP+ V + W +NGQ + + + + NGDWTYQ + L D YTC VEH Sbjct: 141 YPADVTISWRKNGQPVPSHSSALNMAQPNGDWTYQTVSHLATTPSYEDTYTCVVEHIGAP 200 Query: 725 SPILVEW 745 P+ +W Sbjct: 201 EPVCEDW 207 >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 = 68.9 bits (167), Expect = 8e-12 Identities = 36/122 (29%), Positives = 56/122 (45%), Gaps = 2/122 (1%) Frame = +2 Query: 395 RAELDTVCKHNYQIE--EGTTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKV 568 +A LD + + + + GT L + P V + P L N+L+C V + +P + + Sbjct: 63 KAHLDVLVERSNRTRAINGTHLSSPLPPRVAVLPKFRVELGQPNVLICIVDNIFPPVINI 122 Query: 569 QWFRNGQEETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWR 748 W RNGQ + GV T D ++ L D+Y C+VEH L+ P+L W Sbjct: 123 TWLRNGQIISEGVAQTSFYSQPDHLFRKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRHWE 182 Query: 749 AQ 754 Q Sbjct: 183 PQ 184 >ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] Length = 254 Score = 67.4 bits (163), Expect = 2e-11 Identities = 38/117 (32%), Positives = 52/117 (44%) Frame = +2 Query: 395 RAELDTVCKHNYQIEEGTTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQW 574 +A LDT+ K + T V P VT+ + L N+L+C + F P + V W Sbjct: 92 KANLDTMIKRSNH-----TPNTNVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTW 146 Query: 575 FRNGQEETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEW 745 RNG T GV T + D ++ L DVY C+VEH L P+L W Sbjct: 147 LRNGNPVTTGVSETIFLPREDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHW 203 >ref|NP_001011726.1| MHC class II DLA DQalpha chain [Canis familiaris] Length = 255 Score = 64.7 bits (156), Expect = 2e-10 Identities = 30/103 (29%), Positives = 46/103 (44%) Frame = +2 Query: 470 PTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQ 649 P VT+ L N L+C V + +P + V W +N T GV T GD ++ Sbjct: 113 PEVTVFSKSPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFS 172 Query: 650 VLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKM 778 + L D+Y C+VEH L P+L W + + S++ Sbjct: 173 KISYLTFLPSAEDIYDCKVEHWGLDEPLLKHWEPEVPTPMSEL 215 >ref|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein precursor (Zn-alpha-2-glycoprotein) (Zn-alpha-2-GP) [Canis familiaris] Length = 315 Score = 63.2 bits (152), Expect = 4e-10 Identities = 59/230 (25%), Positives = 98/230 (42%), Gaps = 8/230 (3%) Frame = +2 Query: 80 SIMSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRL 259 S M G+ L A + +V L + +D +Q F C N + Sbjct: 75 SQMEGIEDWEKESKLQKAREDIFMVTLKDIMEYYKDKEGSHTFQGMFGCELQNN-KNSGA 133 Query: 260 LTRYIYNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQ-- 433 RY Y+ + F+ + + P W ++ +++ +A L+ C Q Sbjct: 134 FWRYAYDGRNFIEFNKEIPAWVPQDPAALNTKKKWEAEEVYVQRAKAYLEEECPVMLQRY 193 Query: 434 IEEGTT-LQRRVQPTVTI-SPSKAEALNHHNLLVCAVTDFYPSQVKVQWFR--NGQEETA 601 +E G T L R+ P+V+I S E + L C V+ FYP ++ + W + + QE + Sbjct: 194 LEYGKTYLDRQEPPSVSITSHGTPEGIQ---TLKCWVSGFYPQEIDLHWIQADDTQETKS 250 Query: 602 GVVSTPLIRNGDWTYQVLVMLEMNLQ--RGDVYTCRVEHSSLQSPILVEW 745 G P +G+ TYQ V++ + Q Y+C V+HSSL P+ V W Sbjct: 251 GGALLP---SGNNTYQAWVVMSASPQDLASFSYSCLVKHSSLSQPLTVLW 297 >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 = 59.3 bits (142), Expect = 6e-09 Identities = 33/90 (36%), Positives = 50/90 (55%) Frame = +2 Query: 452 LQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRN 631 LQR+V+P +S + H L VC V+ FYP V V W R G++E G + + ++ N Sbjct: 199 LQRKVRPEAWLSAGSSPGPGHLRL-VCHVSGFYPKPVWVSWMR-GEQEQQGTLYSDILPN 256 Query: 632 GDWTYQVLVMLEMNLQRGDVYTCRVEHSSL 721 D T+ + V L++ + +CRV HSSL Sbjct: 257 TDGTWYLQVSLDVKSKEAAGLSCRVRHSSL 286 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: 45,642,161 Number of Sequences: 33732 Number of extensions: 1266202 Number of successful extensions: 5763 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 4741 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): 5724 length of database: 19,266,565 effective HSP length: 104 effective length of database: 15,758,437 effective search space used: 4128710494 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-000186 (1101 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 ... 332 4e-91 Alignment gi|NP_034512.1| histocompatibility 2, class II antigen E beta [... 288 7e-78 Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 257 2e-68 Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 246 3e-65 Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 74 3e-13 Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 74 4e-13 Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 70 4e-12 Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 68 1e-11 Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 62 8e-10 Alignment gi|XP_908790.2| PREDICTED: similar to histocompatibility 2, Q r... 62 1e-09 >ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus] Length = 265 Score = 332 bits (851), Expect = 4e-91 Identities = 167/255 (65%), Positives = 200/255 (78%), Gaps = 1/255 (0%) Frame = +2 Query: 98 VALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYIY 277 +AL++P L +AA+ V+L+VL +P EG DS + FVYQF ECYF NGTQR+R +TRYIY Sbjct: 1 MALQIPSLLLSAAV-VVLMVLSSPGTEGGDSERHFVYQFMGECYFTNGTQRIRYVTRYIY 59 Query: 278 NQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQ-IEEGTTL 454 N+EE+VR+DS+VGE+RAVT LGRPDA+YWN Q ++LE+TRAELDTVC+HNY+ E T+L Sbjct: 60 NREEYVRYDSDVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHTSL 119 Query: 455 QRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNG 634 +R QP V IS S+ EALNHHN LVC+VTDFYP+Q+KV+WFRNGQEET GV ST LIRNG Sbjct: 120 RRLEQPNVVISLSRTEALNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIRNG 179 Query: 635 DWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXXXXX 814 DWT+QVLVMLEM +RG+VYTC VEH SL+SPI VEWRAQSESA SKMLS Sbjct: 180 DWTFQVLVMLEMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLSGIGGCVLGVI 239 Query: 815 XXXXXXXXRHRSQKG 859 RHRSQKG Sbjct: 240 FLGLGLFIRHRSQKG 254 >ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus] Length = 264 Score = 288 bits (737), Expect = 7e-78 Identities = 139/250 (55%), Positives = 178/250 (71%) Frame = +2 Query: 110 LPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYIYNQEE 289 LPR AA+ ++L VL PVA RDS F+ K EC+F+NGTQRVR L RY YN EE Sbjct: 4 LPRVPCVAAVILLLTVLSPPVALVRDSRPWFLEYCKSECHFYNGTQRVRFLKRYFYNLEE 63 Query: 290 HVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTLQRRVQ 469 ++RFDS+VGE+RAVT LGRPDA+ WN Q ++L++ RA +DT C+HNY+I + + RRV+ Sbjct: 64 NLRFDSDVGEFRAVTELGRPDAENWNSQPEILDEKRAAVDTYCRHNYEIFDNFLVPRRVE 123 Query: 470 PTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQ 649 PTVT+ P+K + L HHNLLVC+V+DFYP ++V+WFRNG+EE G+VST L+RNGDWT+Q Sbjct: 124 PTVTVYPTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQ 183 Query: 650 VLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLSXXXXXXXXXXXXXXX 829 LVMLE Q G+VYTC+VEH SL P+ VEW+AQS SAQ+KMLS Sbjct: 184 TLVMLETVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLSGVGGFVLGLLFLRAG 243 Query: 830 XXXRHRSQKG 859 R+QKG Sbjct: 244 LFIYFRNQKG 253 >ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus] Length = 287 Score = 257 bits (656), Expect = 2e-68 Identities = 127/230 (55%), Positives = 168/230 (73%) Frame = +2 Query: 95 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYI 274 MV+L LPRGL AA+ + L++L PV RD F+ Q K EC++FNG +RV +TR+I Sbjct: 1 MVSLWLPRGLCVAAVILSLMMLTPPVILVRDPRPRFLEQLKAECHYFNGKERVWSVTRFI 60 Query: 275 YNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTL 454 YNQEE RF+S+ G++ AVT LGRP +Y N QKD+L+ RA +D C++NY + + L Sbjct: 61 YNQEEFARFNSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRASVDR-CRNNYDLVDIFML 119 Query: 455 QRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNG 634 + +P VT+ P+K + L HHNLLVC+V DFYP ++V+WFRNG+EE GVVST LI+N Sbjct: 120 NLKAEPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNR 179 Query: 635 DWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLS 784 DWTYQ LVMLEM + G+VYTC+VEH SL SP+ VEWRA+S SAQ+K+LS Sbjct: 180 DWTYQTLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKLLS 229 >ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus] Length = 271 Score = 246 bits (628), Expect = 3e-65 Identities = 115/223 (51%), Positives = 157/223 (70%) Frame = +2 Query: 116 RGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRYIYNQEEHV 295 R W AL V L+ L + + EGRDSP++FV Q K +CYF NGT++V LL R+I+N EE++ Sbjct: 5 RAPWVVALLVNLMRLDSFMIEGRDSPENFVIQAKADCYFTNGTEKVHLLVRFIFNLEEYL 64 Query: 296 RFDSNVGEYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQIEEGTTLQRRVQPT 475 FDS++G + A+T LG PDAD WN + D+LE +RA ++ VC+ Y++ T++R V P Sbjct: 65 HFDSDLGMFVALTELGEPDADQWNKRLDLLETSRAAVNMVCRQKYKLGAPFTVERNVPPE 124 Query: 476 VTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQVL 655 VT+ P + L HNLL+C+VT FYP + V+WFRNGQEE +GV+ST L+RNGDWT+Q Sbjct: 125 VTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVRNGDWTFQTT 184 Query: 656 VMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSESAQSKMLS 784 VMLEM + GD+Y+C VEH L P+ V W AQSE + K+LS Sbjct: 185 VMLEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILS 227 >ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus] Length = 261 Score = 73.9 bits (180), Expect = 3e-13 Identities = 61/231 (26%), Positives = 93/231 (40%), Gaps = 23/231 (9%) Frame = +2 Query: 122 LWTAALTVMLVVLGAP----------VAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRY 271 LW L + L +GA V +PQDF Y F Sbjct: 4 LWLLLLVLSLHCMGAGGFVAHVESTCVLNDAGTPQDFTYCVSF----------------- 46 Query: 272 IYNQEEHVRFDSNVG-----EYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQI 436 N++ +D +VG E+ ++ L ++ N Q+ ++ + + L H Sbjct: 47 --NKDLLACWDPDVGKIVPCEFGVLSRLAEIISNILNEQESLIHRLQNGLQDCATHTQPF 104 Query: 437 EEGTTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQ--------E 592 + T + R P+V ++ + +L C V FYP+ V + W +NGQ E Sbjct: 105 WDVLTHRTRA-PSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKE 163 Query: 593 ETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEW 745 +TA NGDWTYQ + L + GDVYTC V+HS PI +W Sbjct: 164 KTAQP-------NGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207 >ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus] Length = 261 Score = 73.6 bits (179), Expect = 4e-13 Identities = 61/231 (26%), Positives = 92/231 (39%), Gaps = 23/231 (9%) Frame = +2 Query: 122 LWTAALTVMLVVLGAP----------VAEGRDSPQDFVYQFKFECYFFNGTQRVRLLTRY 271 LW L + L +GA V + +PQDF Y F Sbjct: 4 LWLLLLVLSLDCMGAGGFVAHVESTCVLDDAGTPQDFTYCVSF----------------- 46 Query: 272 IYNQEEHVRFDSNVG-----EYRAVTPLGRPDADYWNGQKDVLEQTRAELDTVCKHNYQI 436 N++ +D +VG E+ + P + N ++ +L++ + L H Sbjct: 47 --NKDLLACWDPDVGKIVPCEFGVLYPWAENFSRILNKEESLLQRLQNGLLDCASHTQPF 104 Query: 437 EEGTTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQ--------E 592 T + R P+V ++ + +L C V FYP+ V + W +NGQ E Sbjct: 105 WNALTHRTRA-PSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKE 163 Query: 593 ETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEW 745 +TA NGDWTYQ + L + GDVYTC V+HS PI +W Sbjct: 164 KTAQP-------NGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207 >ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus] Length = 256 Score = 70.1 bits (170), Expect = 4e-12 Identities = 35/125 (28%), Positives = 55/125 (44%), Gaps = 3/125 (2%) Frame = +2 Query: 413 VCKHNYQI---EEGTTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRN 583 V KHN + +T P T+ P L N L+C V + +P + + W RN Sbjct: 92 VVKHNLGVLTKRSNSTPATNEAPQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRN 151 Query: 584 GQEETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSES 763 + GV T N D+++ L L D+Y C+VEH L+ P+L W + + Sbjct: 152 SKSVADGVYETSFFVNRDYSFHKLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHWEPEIPA 211 Query: 764 AQSKM 778 S++ Sbjct: 212 PMSEL 216 >ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus] Length = 250 Score = 68.2 bits (165), Expect = 1e-11 Identities = 34/97 (35%), Positives = 45/97 (46%) Frame = +2 Query: 464 VQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 643 V P VT+ P L N+L+C V D +P + V W RN Q T GV T + Sbjct: 111 VPPRVTVLPKTRVELGKPNVLICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHR 170 Query: 644 YQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQ 754 ++ L DVY C+VEH L +P+L W Q Sbjct: 171 FRKFHYLTFVPSAEDVYDCKVEHWGLDTPLLQHWEPQ 207 >ref|NP_034511.2| histocompatibility 2, class II antigen E alpha [Mus musculus] Length = 255 Score = 62.4 bits (150), Expect = 8e-10 Identities = 32/105 (30%), Positives = 46/105 (43%) Frame = +2 Query: 449 TLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIR 628 T V P VT+ L N+L+C + F P V V WFRNG+ T GV T + Sbjct: 105 TPDANVAPEVTVLSRSPVNLGEPNILICFIDKFSPPVVNVTWFRNGRPVTEGVSETVFLP 164 Query: 629 NGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPILVEWRAQSES 763 D ++ L D Y C V+H L+ P+ W + ++ Sbjct: 165 RDDHLFRKFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHWEFEEKT 209 >ref|XP_908790.2| PREDICTED: similar to histocompatibility 2, Q region locus 6 isoform 2 [Mus musculus] Length = 465 Score = 62.0 bits (149), Expect = 1e-09 Identities = 42/184 (22%), Positives = 76/184 (41%), Gaps = 5/184 (2%) Frame = +2 Query: 209 QFKFECYFFNGTQRVRLLTRYIYNQEEHVRFDSNVGEYRAVTPLGRPDADYWNGQKDVLE 388 Q+ + C + + +R ++ Y +++ + ++ + A + W Q + E Sbjct: 233 QWMYGCDVGSDERLLRGYLQFAYEGRDYIALNEDLKTWTAADMAAQITLHKWE-QAGIAE 291 Query: 389 QTRAELDTVCKHNYQIEEGTTLQRRVQPTVTISPSKAEALNHHN-----LLVCAVTDFYP 553 + RA L+ C + + LQ R + + P KA +H L C FYP Sbjct: 292 RDRAYLEGACVQSLR----RYLQLRKETLLCTDPPKAHVTHHPRSYGAVTLRCWALGFYP 347 Query: 554 SQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQSPI 733 + + + W NG+E T + GD T+Q + + L + YTC V H L P+ Sbjct: 348 ADITLTWQLNGEELTQDMELVETRPAGDGTFQKWASVVVPLGKEQNYTCHVNHEGLPEPL 407 Query: 734 LVEW 745 + W Sbjct: 408 TLRW 411 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: 52,175,478 Number of Sequences: 45328 Number of extensions: 1442728 Number of successful extensions: 6438 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 5195 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): 6361 length of database: 21,768,885 effective HSP length: 105 effective length of database: 17,009,445 effective search space used: 4439465145 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)