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-005394 (1225 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] 70 1e-13 Alignment gi|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] 62 4e-11 Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 59 2e-10 Alignment gi|NP_998996.1| CD1 antigen [Sus scrofa] 56 2e-09 >ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] Length = 401 Score = 69.7 bits (169), Expect = 1e-13 Identities = 43/162 (26%), Positives = 73/162 (45%), Gaps = 5/162 (3%) Frame = +3 Query: 276 YNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYC---RHNYRISDT 446 Y+G + + + D+ + AV + + W + + EQ RA ++ C H Y + Sbjct: 139 YDGADYIVLNEDLRSWTAVGMAAQITRRKWEE-ETVAEQSRAYLEVACVQSLHRYLANGK 197 Query: 447 FLVPRRAEPT--VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTG 620 + R P VT +P+ + L C GFYP + + W + GQ+++ V Sbjct: 198 ETLQRSDPPKTHVTRHPSSDNKVT----LRCWALGFYPKEISLTWQQEGQDQSQDVEVVE 253 Query: 621 LIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 746 P+GD TF+ L P + Y+C V+H L P+T+ W Sbjct: 254 TRPSGDGTFRKWAALVVPPGEEQSYTCHVQHEGLQEPLTLRW 295 >ref|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] Length = 356 Score = 61.6 bits (148), Expect = 4e-11 Identities = 45/167 (26%), Positives = 71/167 (42%), Gaps = 4/167 (2%) Frame = +3 Query: 279 NGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLVP 458 NGEE ++FD+ +G + R W D + + + + C H R+ Sbjct: 136 NGEEFMKFDTKLGTWDGEWPEARTIGSKWMQEPDAVNKEKTFLLYSCPH--RLLGHLERG 193 Query: 459 RR----AEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLI 626 R EP A+ ++L C FYP +++R+ RNG AAG + + Sbjct: 194 RGNLEWKEPPSMRMKARPGTAPGFSVLTCIAFSFYPPELQLRFLRNGL--AAGSGESDIG 251 Query: 627 PNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESA 767 PNGD +F L Y C V+H L P+TVE + ++S+ Sbjct: 252 PNGDGSFHAWSSLTVKSGDEHHYCCVVQHAGLAQPLTVELESPAKSS 298 >ref|NP_999143.1| beta 2-microglobulin [Sus scrofa] Length = 118 Score = 59.3 bits (142), Expect = 2e-10 Identities = 32/92 (34%), Positives = 48/92 (52%) Frame = +3 Query: 471 PTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 650 P V VY N L C V+GF+P +E+ +NG++ A + L + DW+F Sbjct: 25 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSFY 82 Query: 651 TMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 746 +V E P + + YSCRV+H +L P V+W Sbjct: 83 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 114 >ref|NP_998996.1| CD1 antigen [Sus scrofa] Length = 339 Score = 56.2 bits (134), Expect = 2e-09 Identities = 29/73 (39%), Positives = 39/73 (53%) Frame = +3 Query: 504 PLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQS 683 P H +LVC V+GFYP + V W R+ QE+ G ++PN D T+ V L+ Sbjct: 215 PSPGHLMLVCHVSGFYPKPIWVMWMRDEQEQ-PGTQQGDILPNADGTWYLRVTLDVAAGE 273 Query: 684 GEVYSCRVEHPSL 722 SCRV+H SL Sbjct: 274 ASGLSCRVKHSSL 286 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: 1,228,704 Number of Sequences: 1040 Number of extensions: 32888 Number of successful extensions: 138 Number of sequences better than 1.0e-05: 4 Number of HSP's better than 0.0 without gapping: 112 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): 133 length of database: 434,620 effective HSP length: 79 effective length of database: 352,460 effective search space used: 115606880 frameshift window, decay const: 40, 0.1 T: 12 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits)
Search to RefSeqBP
BLASTX 2.2.10 [Oct-19-2004] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Query= 20060611C-005394 (1225 letters) Database: RefSeqBP 33,508 sequences; 16,112,626 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_001012698.2| major histocompatibility complex, class II, ... 380 e-105 Alignment gi|XP_582099.2| PREDICTED: similar to major histocompatibility ... 313 1e-85 Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 283 3e-76 Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 283 3e-76 Alignment gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati... 267 1e-71 Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 254 1e-67 Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 239 2e-63 Alignment gi|XP_874766.1| PREDICTED: similar to HLA class II histocompati... 209 5e-54 Alignment gi|NP_001012399.1| hemochromatosis [Bos taurus] 77 4e-14 Alignment gi|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus] 75 1e-13 >ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus] Length = 266 Score = 380 bits (975), Expect = e-105 Identities = 186/266 (69%), Positives = 205/266 (77%) Frame = +3 Query: 96 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHY 275 M+ L FS G WMAAL VML+VL PPLA AR+ P NGTERVR LDRH+ Sbjct: 1 MVCLYFSGGSWMAALIVMLMVLCPPLAWAREIQPHFLEYYKGECHFFNGTERVRFLDRHF 60 Query: 276 YNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLV 455 YNGEE +RFDSD GE+RAVTELGRP A+ WNS+KD LEQ+RAEVD CRHNY ++F V Sbjct: 61 YNGEEFVRFDSDWGEFRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTV 120 Query: 456 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 635 RR EPTVTVYPAKTQPLQHHNLLVCSV GFYPGH+EVRWFRNG EE AGV+STGLI NG Sbjct: 121 QRRVEPTVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNG 180 Query: 636 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXX 815 DWTFQTMVMLETVPQSGEVY+C+V+HP TSP+TVEWRARS+SAQ KMMS Sbjct: 181 DWTFQTMVMLETVPQSGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMSGVGGFVLGLL 240 Query: 816 XXXXXXXIYFKNQKGRPALQPTGLLS 893 IYF+NQKGRP LQPTGLLS Sbjct: 241 FLAVGLFIYFRNQKGRPTLQPTGLLS 266 >ref|XP_582099.2| PREDICTED: similar to major histocompatibility complex, class II, DR beta 5 precursor [Bos taurus] Length = 255 Score = 313 bits (803), Expect = 1e-85 Identities = 155/252 (61%), Positives = 184/252 (73%) Frame = +3 Query: 129 MAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHYYNGEEILRFDS 308 MAAL V+L+VLS P + AR+T P NG ER+R R+ YN +E + FDS Sbjct: 1 MAALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDS 60 Query: 309 DVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLVPRRAEPTVTVY 488 DVGE+ A+TELGR +A+ WN +KD +EQ RA+VDT CR NY+ +FL RR EPTVTVY Sbjct: 61 DVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVY 120 Query: 489 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 668 PAKTQPLQHHNLLVCSV GFYPGH+EVRWF N EE AGV+STGLI NGDWTFQTMVMLE Sbjct: 121 PAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQNGDWTFQTMVMLE 180 Query: 669 TVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXXXXXXXXXIYFK 848 TVPQSGEVY+C+VEHPS TSP+TVEWRA+S+SAQ K+MS I+ + Sbjct: 181 TVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQRKLMSGIGGFVLGLLFLGVGLFIHLR 240 Query: 849 NQKGRPALQPTG 884 ++KG PALQP G Sbjct: 241 SKKGHPALQPIG 252 >ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus] Length = 261 Score = 283 bits (723), Expect = 3e-76 Identities = 138/232 (59%), Positives = 169/232 (72%) Frame = +3 Query: 90 SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDR 269 S M+ L RG W AA+ V L VLS P A RD+P NGTERVR + R Sbjct: 2 SGMVALRIPRGLWTAAVMVTLAVLSTPGAEGRDSPQDTVVHFMGQCYFTNGTERVRYVTR 61 Query: 270 HYYNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTF 449 + YN EE +DSDVGEYRAVT+LGR A+ WNS+KDILEQ RAE+DT CRHNY++ Sbjct: 62 YIYNQEETAYYDSDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEVIT 121 Query: 450 LVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 629 + R+ EPTVT+ ++T+ L HHNLLVCSVT FYPG ++VRWF+NG+EE AG+VST LI Sbjct: 122 SLQRQVEPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIR 181 Query: 630 NGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMS 785 NGDWTFQ +VMLE P+ G+VY+C VEHPSL SP++VEWRA+SESAQ KM+S Sbjct: 182 NGDWTFQILVMLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKMLS 233 >ref|NP_001029840.2| MHC class II antigen [Bos taurus] Length = 261 Score = 283 bits (723), Expect = 3e-76 Identities = 142/257 (55%), Positives = 171/257 (66%) Frame = +3 Query: 90 SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDR 269 S M+ L RG W A + V LV+LS P A RD+P NGTERVR + R Sbjct: 2 SGMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGLCYFTNGTERVRYVTR 61 Query: 270 HYYNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTF 449 + YN EE +RFDSD YRA+T LGRP+A+ WNS+KD LEQ RAE DT CRHNY+ Sbjct: 62 YIYNQEEYVRFDSDWDLYRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAELIT 121 Query: 450 LVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 629 + RR EPTVT+ P++T+ L HHNLLVCSVT FYP ++VRWFRN +EE AGVVST LI Sbjct: 122 SLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLIR 181 Query: 630 NGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXX 809 NGDWTFQ +VMLE PQ G+VY+C VEHPSL SP+ VEWRA+SESAQ KM+S Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLSGVGGFVLG 241 Query: 810 XXXXXXXXXIYFKNQKG 860 I+ ++QKG Sbjct: 242 LIFLGLGLIIHHRSQKG 258 >ref|XP_876139.1| PREDICTED: similar to H-2 class II histocompatibility antigen, I-E beta chain precursor [Bos taurus] Length = 269 Score = 267 bits (683), Expect = 1e-71 Identities = 127/183 (69%), Positives = 145/183 (79%) Frame = +3 Query: 237 NGTERVRLLDRHYYNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTY 416 NGT++VR LDR+ YN EE ++FDS VGEYRA TE+GRP A+ WN L++ RA V Y Sbjct: 12 NGTQQVRFLDRYIYNREEQVQFDSLVGEYRARTEMGRPAAERWNRWPQALQRARAAVHAY 71 Query: 417 CRHNYRISDTFLVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEE 596 C NY + V RR +PTVTVYP K++PL HHNLLVCSV GFYPGH+EVRWFRNGQEE Sbjct: 72 CASNYEFFASRTVQRRVQPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVRWFRNGQEE 131 Query: 597 AAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGK 776 AGVVSTGLIPNGDWTFQ MVMLE VPQ GEVY+C VEHPS TSPVTVEWRA+ ES+Q K Sbjct: 132 EAGVVSTGLIPNGDWTFQIMVMLEIVPQGGEVYACHVEHPSRTSPVTVEWRAQDESSQEK 191 Query: 777 MMS 785 M+S Sbjct: 192 MLS 194 >ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus] Length = 259 Score = 254 bits (649), Expect = 1e-67 Identities = 129/213 (60%), Positives = 150/213 (70%) Frame = +3 Query: 147 MLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHYYNGEEILRFDSDVGEYR 326 + +VL P A RD P NGTE VRL+ R YN EEIL FDSD+GE+ Sbjct: 19 VFLVLRIPEAHCRDAPKNFVYQFKGMCYFTNGTEHVRLVARQIYNKEEILHFDSDLGEFV 78 Query: 327 AVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLVPRRAEPTVTVYPAKTQP 506 AVTELGR A+ WN++KD+L + RA VDT CRHNY+ + F V RR EPTVTV PA T+ Sbjct: 79 AVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYKETAGFTVQRRVEPTVTVSPASTEA 138 Query: 507 LQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSG 686 L HHNLLVCSVT FYP V+V+WFRN QE+ AGV T L NGDWT+Q VMLETVPQ G Sbjct: 139 LNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGFTPLTQNGDWTYQIHVMLETVPQLG 198 Query: 687 EVYSCRVEHPSLTSPVTVEWRARSESAQGKMMS 785 +VY C V+HPSL SP+TVEWRA+SESAQ KM S Sbjct: 199 DVYVCHVDHPSLQSPITVEWRAQSESAQSKMQS 231 >ref|NP_001013618.1| major histocompatibility complex, class II, DO beta [Bos taurus] Length = 271 Score = 239 bits (611), Expect = 2e-63 Identities = 117/246 (47%), Positives = 152/246 (61%) Frame = +3 Query: 126 WMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHYYNGEEILRFD 305 W+ + L + RD+P NGTE+VR + R +N E+ RFD Sbjct: 8 WVVTFLSTALRLDASVTQGRDSPEDFVTQAKADCYFTNGTEKVRFVVRFIFNLEDYARFD 67 Query: 306 SDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLVPRRAEPTVTV 485 SD+G + A+TELG+P+A+ WN+R DIL + RA VD CR NY + F V RR +P VTV Sbjct: 68 SDLGMFVALTELGKPDAERWNNRPDILARSRASVDMLCRRNYYLGAPFTVGRRVQPEVTV 127 Query: 486 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 665 YP KT LQH NLL+C VTGFYPG ++V WFRNGQE+ G++STGLI NGDWTFQ VML Sbjct: 128 YPEKTPALQHRNLLLCLVTGFYPGDIKVTWFRNGQEQREGIMSTGLIRNGDWTFQMTVML 187 Query: 666 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXXXXXXXXXIYF 845 P+ GEVY+C V+HPSL SPV+VEWRA+SE + K++S ++ Sbjct: 188 AMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILSGAAAFLVGLVFFLVEIVVHI 247 Query: 846 KNQKGR 863 + KGR Sbjct: 248 RAWKGR 253 >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 = 209 bits (531), Expect = 5e-54 Identities = 128/280 (45%), Positives = 159/280 (56%), Gaps = 2/280 (0%) Frame = +3 Query: 54 LPAPFTHCPLLFSSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXX 233 L +PF P LF+S + L FS+G WMAAL VM+ LSP L AR+T Sbjct: 2 LSSPF---PFLFASTVCLYFSKGSWMAALLVMMG-LSPLLTWARETQ------------- 44 Query: 234 XNGTERVRLLDRHYYNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDT 413 Y + DS + A++ G+P A + D Sbjct: 45 --------------YKRTPWVVIDSQIS---AISH-GKPCALNGYRECD----------- 75 Query: 414 YCRH--NYRISDTFLVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNG 587 C H + + + ++ EPTVTVYPAKTQPLQH++LLVCSV GFY GHVEVRWF G Sbjct: 76 GCFHPIGLKANRDITLQKKVEPTVTVYPAKTQPLQHNHLLVCSVNGFYLGHVEVRWFWKG 135 Query: 588 QEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESA 767 QEE AGV+STGLI NGDWTF+T+VMLETV QSGEVY+C++EHPS SP+ EWRA+S+SA Sbjct: 136 QEEEAGVISTGLIQNGDWTFETIVMLETVLQSGEVYTCQLEHPSWRSPIAEEWRAQSDSA 195 Query: 768 QGKMMSXXXXXXXXXXXXXXXXXIYFKNQKGRPALQPTGL 887 Q KMMS +F+NQKG LQPTG+ Sbjct: 196 QSKMMSGTGGFALGLLFLVVGLFTHFRNQKGHSGLQPTGI 235 >ref|NP_001012399.1| hemochromatosis [Bos taurus] Length = 356 Score = 76.6 bits (187), Expect = 4e-14 Identities = 48/164 (29%), Positives = 78/164 (47%), Gaps = 4/164 (2%) Frame = +3 Query: 267 RHYYNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNY-RISD 443 ++ Y+G++ L F + ++RA + +W K +Q RA +D C + + Sbjct: 145 KYGYDGQDHLEFRPETLDWRAAEPRAQVTKLEWEVNKIRAKQNRAYLDRDCPEQLLHLLE 204 Query: 444 TFLVP--RRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQE-EAAGVVS 614 P ++ P V V T L L C FYP ++ +RW ++ Q +A + Sbjct: 205 LGRGPLEQQVPPLVKVTHHVTSSL---TTLRCRALNFYPQNITIRWLKDKQFLDAKEIKP 261 Query: 615 TGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 746 ++PNGD T+Q V L +P + YSC+VEHP L P+T W Sbjct: 262 EDVLPNGDGTYQAWVALAMLPGEEQRYSCQVEHPGLDQPLTATW 305 >ref|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus] Length = 299 Score = 74.7 bits (182), Expect = 1e-13 Identities = 46/167 (27%), Positives = 82/167 (49%), Gaps = 4/167 (2%) Frame = +3 Query: 276 YNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYC----RHNYRISD 443 Y+G++ ++FD ++ + + + + W + +++ +A ++ C R S Sbjct: 136 YDGQDFIKFDKEIPAWVPLDPAAQNTKRKWEAEAVYVQRAKAYLEEECPGMLRRYLPYSR 195 Query: 444 TFLVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGL 623 T L R+ P+V+V P H L C FYP + + W R G + A + Sbjct: 196 THL-DRQESPSVSV-TGHAAP-GHKRTLKCLAYDFYPRSIGLHWTRAGDAQEAES-GGDV 251 Query: 624 IPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSES 764 +P+G+ T+Q+ V++ P+ YSC VEH SLT P+TV W R ++ Sbjct: 252 LPSGNGTYQSWVVVGVPPEDQAPYSCHVEHRSLTRPLTVPWDPRQQA 298 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: 46,843,826 Number of Sequences: 33508 Number of extensions: 1345250 Number of successful extensions: 4939 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 4157 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): 4895 length of database: 16,112,626 effective HSP length: 104 effective length of database: 12,627,794 effective search space used: 3826221582 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-005394 (1225 letters) Database: RefSeqCP 33,732 sequences; 19,266,565 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami... 366 e-101 Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 305 5e-83 Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 256 4e-68 Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 244 1e-64 Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 73 5e-13 Alignment gi|NP_001018646.1| MHC class Ib [Canis familiaris] 69 7e-12 Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 69 1e-11 Alignment gi|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris] 67 4e-11 Alignment gi|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein... 67 4e-11 Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 64 3e-10 >ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris] Length = 266 Score = 366 bits (940), Expect = e-101 Identities = 177/266 (66%), Positives = 202/266 (75%) Frame = +3 Query: 96 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHY 275 M+ LCF G WM AL ++L+VL+PP A ARDTPP NGTERVR ++R+ Sbjct: 1 MVCLCFLGGSWMTALMLILMVLNPPFAWARDTPPHFLEVAKSECYFTNGTERVRFVERYI 60 Query: 276 YNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLV 455 +N EE +RFDSDVGE+RAVTELGRP A+ WN +K+ILEQ RA VDTYCRHNY + ++F V Sbjct: 61 HNREEFVRFDSDVGEFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYGVIESFTV 120 Query: 456 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 635 RR EPTVTVYP KTQ LQHHNLLVCSV GFYPGH+EVRW RNGQEE AGVVSTGLI NG Sbjct: 121 QRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNG 180 Query: 636 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXX 815 DWTFQ +VMLE VPQSGEVY+C+VEHPSLTSPVTVEWRA+S+SAQ KM+S Sbjct: 181 DWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLSGIGGFVLGLL 240 Query: 816 XXXXXXXIYFKNQKGRPALQPTGLLS 893 IYF+NQKG LQPTGLLS Sbjct: 241 FLAVGLFIYFRNQKGHSGLQPTGLLS 266 >ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris] Length = 269 Score = 305 bits (782), Expect = 5e-83 Identities = 150/267 (56%), Positives = 185/267 (69%) Frame = +3 Query: 90 SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDR 269 S + LC RGFW AA+ ++LVVLS P+A RD+P NGTERVRLL + Sbjct: 2 SGKMTLCIPRGFWTAAVMMILVVLSIPVAEGRDSPQDFVFQYKAECYFTNGTERVRLLTK 61 Query: 270 HYYNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTF 449 + YN EE +RFDSDVGE+RAVTELGRP+A+ WN +KD +++ RAE+DT CRHNY + Sbjct: 62 YIYNREEFVRFDSDVGEFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREELT 121 Query: 450 LVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 629 + RR EPTVT++P+KT+ L HHNLLVCSVT FYPG ++VRWFRN QE+ AGVVST LI Sbjct: 122 TLQRRVEPTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIR 181 Query: 630 NGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXX 809 NGDWTFQ +VMLE PQ G+VY+C VEH SL SP+TV+WRA+SESAQ KM+S Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLSGIGGFVLG 241 Query: 810 XXXXXXXXXIYFKNQKGRPALQPTGLL 890 I ++QKG P GLL Sbjct: 242 LIFLGLGLIIRHRSQKGSRGSPPAGLL 268 >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 = 256 bits (653), Expect = 4e-68 Identities = 127/253 (50%), Positives = 161/253 (63%) Frame = +3 Query: 126 WMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHYYNGEEILRFD 305 WM AL V + L + RD+P NGTE+V+ + R +N EE RFD Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67 Query: 306 SDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLVPRRAEPTVTV 485 S VG + A+TELG+P+A+ WNS+ ILE+ RA VD CRHNY + F V R+ +P VTV Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127 Query: 486 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 665 YP +T +QHHNLL+CSVTGFYPG ++++WFRNGQEE GV+STGLI NGDWTFQTMVML Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187 Query: 666 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXXXXXXXXXIYF 845 E P+ G+VY+C V HPSL SPV+VEWRA+S + KM+S I Sbjct: 188 EMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLSGIAAFLLGLIFLLVGTVICL 247 Query: 846 KNQKGRPALQPTG 884 + QKG Q +G Sbjct: 248 RAQKGYVETQFSG 260 >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 = 244 bits (623), Expect = 1e-64 Identities = 115/207 (55%), Positives = 144/207 (69%) Frame = +3 Query: 126 WMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHYYNGEEILRFD 305 WM AL V + L + RD+P NGTE+V+ + R +N EE RFD Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67 Query: 306 SDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLVPRRAEPTVTV 485 S VG + A+TELG+P+A+ WNS+ ILE+ RA VD CRHNY + F V R+ +P VTV Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127 Query: 486 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 665 YP +T +QHHNLL+CSVTGFYPG ++++WFRNGQEE GV+STGLI NGDWTFQTMVML Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187 Query: 666 ETVPQSGEVYSCRVEHPSLTSPVTVEW 746 E P+ G+VY+C V HPSL SPV+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 = 73.2 bits (178), Expect = 5e-13 Identities = 42/130 (32%), Positives = 63/130 (48%), Gaps = 1/130 (0%) Frame = +3 Query: 360 DWNSRKDILEQRRAEVDTYCRHNYRISDTFLVPRRAEPTVTVYPAKTQPLQHHNLLVCSV 539 D+ ++++ L QR + C + + L R PTV V + + +L C V Sbjct: 78 DYLNQQEYLHQRLSNGLQDCATHTQSFWGSLTHRTRPPTVQVAKSTPFNTKESVMLACYV 137 Query: 540 TGFYPGHVEVRWFRNGQEEAAGVVSTGLI-PNGDWTFQTMVMLETVPQSGEVYSCRVEHP 716 GFYP V + W +NGQ + + + PNGDWT+QT+ L T P + Y+C VEH Sbjct: 138 WGFYPADVTISWRKNGQPVPSHSSALNMAQPNGDWTYQTVSHLATTPSYEDTYTCVVEHI 197 Query: 717 SLTSPVTVEW 746 PV +W Sbjct: 198 GAPEPVCEDW 207 >ref|NP_001018646.1| MHC class Ib [Canis familiaris] Length = 381 Score = 69.3 bits (168), Expect = 7e-12 Identities = 47/178 (26%), Positives = 78/178 (43%), Gaps = 7/178 (3%) Frame = +3 Query: 252 VRLLDRHYYNGEEILRFDSDVGEYRAVTELGRPEAKDWNS------RKDILEQRRAEVDT 413 +R RH Y+G + + D+ + + + + W++ RK+ LE R E Sbjct: 140 LRGYQRHAYDGLDYITLSEDLRSWIVEDPVAQITRRKWDAATVAENRKNFLEGRCLE--W 197 Query: 414 YCRHNYRISDTFLVPRRAEPTVTVYPAKTQPLQHHNL-LVCSVTGFYPGHVEVRWFRNGQ 590 RH +T +RA+P T +P+ H + L C GFYP + + W R+G+ Sbjct: 198 LRRHLENGRETL---QRADPPKT--SVTRRPISEHEVTLKCWALGFYPAEITLTWQRDGE 252 Query: 591 EEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSES 764 ++ P GD TFQ + + Y+C + H SLT P+T+ W +S Sbjct: 253 DQTQDTELVETRPGGDGTFQKWAAVVVPSGEEQRYTCHILHKSLTKPITLRWEPPPQS 310 >ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] Length = 254 Score = 68.6 bits (166), Expect = 1e-11 Identities = 44/158 (27%), Positives = 68/158 (43%), Gaps = 1/158 (0%) Frame = +3 Query: 276 YNGEEILRFDSDVGE-YRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFL 452 ++G+EI D + E + E GR + + + +A +DT + + +T Sbjct: 51 FDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDTMIKRSNHTPNT-- 108 Query: 453 VPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPN 632 P VTV L N+L+C + F P + V W RNG GV T +P Sbjct: 109 ---NVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGVSETIFLPR 165 Query: 633 GDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 746 D F+ L +P + +VY C+VEH L P+ W Sbjct: 166 EDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHW 203 >ref|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris] Length = 381 Score = 67.0 bits (162), Expect = 4e-11 Identities = 46/178 (25%), Positives = 77/178 (43%), Gaps = 7/178 (3%) Frame = +3 Query: 252 VRLLDRHYYNGEEILRFDSDVGEYRAVTELGRPEAKDWNS------RKDILEQRRAEVDT 413 +R RH Y+G + + D+ + + + + W++ RK+ LE R E Sbjct: 140 LRGYQRHAYDGLDYITLSEDLRSWIVEDPVAQITRRKWDAATVAENRKNFLEGRCLE--W 197 Query: 414 YCRHNYRISDTFLVPRRAEPTVTVYPAKTQPLQHHNL-LVCSVTGFYPGHVEVRWFRNGQ 590 RH +T +RA+P T +P+ H + L C GFYP + + W R+G+ Sbjct: 198 LRRHLENGRETL---QRADPPKT--SVTRRPISEHEVTLKCWALGFYPAEITLTWQRDGE 252 Query: 591 EEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSES 764 ++ P GD TFQ + + Y+C + H SL P+T+ W +S Sbjct: 253 DQTQDTELVETRPGGDGTFQKWAAVVVPSGEEQRYTCHILHKSLPKPITLRWEPPPQS 310 >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 = 67.0 bits (162), Expect = 4e-11 Identities = 45/178 (25%), Positives = 87/178 (48%), Gaps = 8/178 (4%) Frame = +3 Query: 267 RHYYNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYC----RHNYR 434 R+ Y+G + F+ ++ + K W + + +++ +A ++ C + Sbjct: 136 RYAYDGRNFIEFNKEIPAWVPQDPAALNTKKKWEAEEVYVQRAKAYLEEECPVMLQRYLE 195 Query: 435 ISDTFLVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFR--NGQEEAAGV 608 T+L R+ P+V++ T + L C V+GFYP +++ W + + QE +G Sbjct: 196 YGKTYL-DRQEPPSVSITSHGTP--EGIQTLKCWVSGFYPQEIDLHWIQADDTQETKSG- 251 Query: 609 VSTGLIPNGDWTFQTMVMLETVPQ--SGEVYSCRVEHPSLTSPVTVEWRARSESAQGK 776 L+P+G+ T+Q V++ PQ + YSC V+H SL+ P+TV W R + + + Sbjct: 252 --GALLPSGNNTYQAWVVMSASPQDLASFSYSCLVKHSSLSQPLTVLWDKRQGAVRAE 307 >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 = 63.9 bits (154), Expect = 3e-10 Identities = 31/92 (33%), Positives = 43/92 (46%) Frame = +3 Query: 471 PTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 650 P V V P L N+L+C V +P + + W RNGQ + GV T D F+ Sbjct: 90 PRVAVLPKFRVELGQPNVLICIVDNIFPPVINITWLRNGQIISEGVAQTSFYSQPDHLFR 149 Query: 651 TMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 746 L VP + ++Y C+VEH L P+ W Sbjct: 150 KFCYLTFVPSAEDMYDCKVEHWGLEEPLLRHW 181 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: 54,980,123 Number of Sequences: 33732 Number of extensions: 1573472 Number of successful extensions: 5982 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 4957 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): 5960 length of database: 19,266,565 effective HSP length: 105 effective length of database: 15,724,705 effective search space used: 4748860910 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-005394 (1225 letters) Database: RefSeqHP 39,411 sequences; 17,774,539 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_002115.1| major histocompatibility complex, class II, DR ... 363 e-100 Alignment gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati... 356 3e-98 Alignment gi|NP_072049.2| major histocompatibility complex, class II, DR ... 353 1e-97 Alignment gi|NP_002116.2| major histocompatibility complex, class II, DR ... 353 2e-97 Alignment gi|NP_068818.4| major histocompatibility complex, class II, DR ... 345 3e-95 Alignment gi|XP_949915.1| PREDICTED: similar to HLA class II histocompati... 330 2e-90 Alignment gi|XP_949921.1| PREDICTED: similar to HLA class II histocompati... 313 2e-85 Alignment gi|NP_002114.2| major histocompatibility complex, class II, DQ ... 285 6e-77 Alignment gi|NP_872355.1| major histocompatibility complex, class II, DQ ... 266 2e-71 Alignment gi|NP_002112.3| major histocompatibility complex, class II, DP ... 259 3e-69 >ref|NP_002115.1| major histocompatibility complex, class II, DR beta 1 precursor [Homo sapiens] Length = 266 Score = 363 bits (932), Expect = e-100 Identities = 182/266 (68%), Positives = 204/266 (76%) Frame = +3 Query: 96 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHY 275 M+ L G M ALTV L+VLS PLALA DT P NGTERVRLL+R Sbjct: 1 MVCLKLPGGSCMTALTVTLMVLSSPLALAGDTRPRFLWQLKFECHFFNGTERVRLLERCI 60 Query: 276 YNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLV 455 YN EE +RFDSDVGEYRAVTELGRP+A+ WNS+KD+LEQRRA VDTYCRHNY + ++F V Sbjct: 61 YNQEESVRFDSDVGEYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTV 120 Query: 456 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 635 RR EP VTVYP+KTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 636 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXX 815 DWTFQT+VMLETVP+SGEVY+C+VEHPS+TSP+TVEWRARSESAQ KM+S Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240 Query: 816 XXXXXXXIYFKNQKGRPALQPTGLLS 893 IYF+NQKG LQPTG LS Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266 >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 = 356 bits (913), Expect = 3e-98 Identities = 180/266 (67%), Positives = 199/266 (74%) Frame = +3 Query: 96 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHY 275 M+ L G MAALTV L+VLS PLALA DT P NGTERVR L R Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60 Query: 276 YNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLV 455 YN EE +RFDSDVGEYRAVTELGRP A+ WNS+KD LE+RRAEVDT CRHNY + ++F V Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120 Query: 456 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 635 RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 636 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXX 815 DWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TVEWRARSESAQ KM+S Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240 Query: 816 XXXXXXXIYFKNQKGRPALQPTGLLS 893 IYF+NQKG LQPTG LS Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266 >ref|NP_072049.2| major histocompatibility complex, class II, DR beta 3 precursor [Homo sapiens] Length = 266 Score = 353 bits (907), Expect = 1e-97 Identities = 176/266 (66%), Positives = 199/266 (74%) Frame = +3 Query: 96 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHY 275 M+ L G +AALTV L+VLS LA A DT P NGTERVR LDR++ Sbjct: 1 MVCLKLPGGSSLAALTVTLMVLSSRLAFAGDTRPRFLELRKSECHFFNGTERVRYLDRYF 60 Query: 276 YNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLV 455 +N EE LRFDSDVGEYRAVTELGRP A+ WNS+KD+LEQ+R VD YCRHNY + ++F V Sbjct: 61 HNQEEFLRFDSDVGEYRAVTELGRPVAESWNSQKDLLEQKRGRVDNYCRHNYGVGESFTV 120 Query: 456 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 635 RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVHPQVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 636 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXX 815 DWTFQT+VMLETVP+SGEVY+C+VEHPS+TS +TVEWRARSESAQ KM+S Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSALTVEWRARSESAQSKMLSGVGGFVLGLL 240 Query: 816 XXXXXXXIYFKNQKGRPALQPTGLLS 893 IYF+NQKG LQPTG LS Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266 >ref|NP_002116.2| major histocompatibility complex, class II, DR beta 5 precursor [Homo sapiens] Length = 266 Score = 353 bits (906), Expect = 2e-97 Identities = 178/266 (66%), Positives = 198/266 (74%) Frame = +3 Query: 96 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHY 275 M+ L G +MA LTV L+VLS PLALA DT P NGTERVR L R Sbjct: 1 MVCLKLPGGSYMAKLTVTLMVLSSPLALAGDTRPRFLQQDKYECHFFNGTERVRFLHRDI 60 Query: 276 YNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLV 455 YN EE LRFDSDVGEYRAVTELGRP+A+ WNS+KD LE RRA VDTYCRHNY + ++F V Sbjct: 61 YNQEEDLRFDSDVGEYRAVTELGRPDAEYWNSQKDFLEDRRAAVDTYCRHNYGVGESFTV 120 Query: 456 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 635 RR EP VTVYPA+TQ LQHHNLLVCSV GFYPG +EVRWFRN QEE AGVVSTGLI NG Sbjct: 121 QRRVEPKVTVYPARTQTLQHHNLLVCSVNGFYPGSIEVRWFRNSQEEKAGVVSTGLIQNG 180 Query: 636 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXX 815 DWTFQT+VMLETVP+SGEVY+C+VEHPS+TSP+TVEWRA+SESAQ KM+S Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRAQSESAQSKMLSGVGGFVLGLL 240 Query: 816 XXXXXXXIYFKNQKGRPALQPTGLLS 893 IYFKNQKG L PTGL+S Sbjct: 241 FLGAGLFIYFKNQKGHSGLHPTGLVS 266 >ref|NP_068818.4| major histocompatibility complex, class II, DR beta 4 precursor [Homo sapiens] Length = 266 Score = 345 bits (886), Expect = 3e-95 Identities = 173/266 (65%), Positives = 200/266 (75%) Frame = +3 Query: 96 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHY 275 M+ L G MAALTV L VLS PLALA DT P NGTERV L R+ Sbjct: 1 MVCLKLPGGSCMAALTVTLTVLSSPLALAGDTQPRFLEQAKCECHFLNGTERVWNLIRYI 60 Query: 276 YNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLV 455 YN EE R++SD+GEY+AVTELGRP+A+ WNS+KD+LE+RRAEVDTYCR+NY + ++F V Sbjct: 61 YNQEEYARYNSDLGEYQAVTELGRPDAEYWNSQKDLLERRRAEVDTYCRYNYGVVESFTV 120 Query: 456 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 635 RR +P VTVYP+KTQPLQHHNLLVCSV GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 636 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXX 815 DWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TV+W ARSESAQ KM+S Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLSGVGGFVLGLL 240 Query: 816 XXXXXXXIYFKNQKGRPALQPTGLLS 893 IYF+NQKG LQPTGLLS Sbjct: 241 FLGTGLFIYFRNQKGHSGLQPTGLLS 266 >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 = 330 bits (845), Expect = 2e-90 Identities = 159/219 (72%), Positives = 176/219 (80%) Frame = +3 Query: 237 NGTERVRLLDRHYYNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTY 416 NGTERVR L R YN EE +RFDSDVGEYRAVTELGRP A+ WNS+KD LE+RRAEVDT Sbjct: 66 NGTERVRYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTV 125 Query: 417 CRHNYRISDTFLVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEE 596 CRHNY + ++F V RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE Sbjct: 126 CRHNYGVGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEE 185 Query: 597 AAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGK 776 AGVVSTGLI NGDWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TVEWRARSESAQ K Sbjct: 186 KAGVVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSK 245 Query: 777 MMSXXXXXXXXXXXXXXXXXIYFKNQKGRPALQPTGLLS 893 M+S IYF+NQKG LQPTG LS Sbjct: 246 MLSGVGGFVLGLLFLGAGLFIYFRNQKGHSGLQPTGFLS 284 >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 = 313 bits (802), Expect = 2e-85 Identities = 155/217 (71%), Positives = 172/217 (79%) Frame = +3 Query: 96 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHY 275 M+ L G MAALTV L+VLS PLALA DT P NGTERVR L R Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60 Query: 276 YNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLV 455 YN EE +RFDSDVGEYRAVTELGRP A+ WNS+KD LE+RRAEVDT CRHNY + ++F V Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120 Query: 456 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 635 RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 636 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 746 DWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TVEW Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEW 217 >ref|NP_002114.2| major histocompatibility complex, class II, DQ beta 1 precursor [Homo sapiens] Length = 261 Score = 285 bits (729), Expect = 6e-77 Identities = 142/247 (57%), Positives = 172/247 (69%) Frame = +3 Query: 120 GFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHYYNGEEILR 299 G A +T+ML +LS P+A RD+P NGTERVRL+ R YN EEI+R Sbjct: 12 GLRAATVTLMLSMLSTPVAEGRDSPEDFVYQFKGMCYFTNGTERVRLVSRSIYNREEIVR 71 Query: 300 FDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLVPRRAEPTV 479 FDSDVGE+RAVT LG P A+ WNS+KDILE++RA VD CRHNY++ + RR EPTV Sbjct: 72 FDSDVGEFRAVTLLGLPAAEYWNSQKDILERKRAAVDRVCRHNYQLELRTTLQRRVEPTV 131 Query: 480 TVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMV 659 T+ P++T+ L HHNLLVCSVT FYP ++VRWFRN QEE AGVVST LI NGDWTFQ +V Sbjct: 132 TISPSRTEALNHHNLLVCSVTDFYPAQIKVRWFRNDQEETAGVVSTPLIRNGDWTFQILV 191 Query: 660 MLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXXXXXXXXXI 839 MLE PQ G+VY+C VEHPSL SP+TVEWRA+SESAQ KM+S I Sbjct: 192 MLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGIGGFVLGLIFLGLGLII 251 Query: 840 YFKNQKG 860 + ++QKG Sbjct: 252 HHRSQKG 258 >ref|NP_872355.1| major histocompatibility complex, class II, DQ beta 2 [Homo sapiens] Length = 231 Score = 266 bits (681), Expect = 2e-71 Identities = 131/218 (60%), Positives = 155/218 (71%) Frame = +3 Query: 120 GFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHYYNGEEILR 299 GFW AA+TVMLV+LS P+A ARD P NGTERVR + R+ YN EE R Sbjct: 12 GFWAAAVTVMLVMLSTPVAEARDFPKDFLVQFKGMCYFTNGTERVRGVARYIYNREEYGR 71 Query: 300 FDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLVPRRAEPTV 479 FDSDVGE++AVTELGR +DWN+ KD LEQ RA VD CRHNY + R+ EPTV Sbjct: 72 FDSDVGEFQAVTELGR-SIEDWNNYKDFLEQERAAVDKVCRHNYEAELRTTLQRQVEPTV 130 Query: 480 TVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMV 659 T+ P++T+ L HHNLLVCSVT FYP ++V+WFRN QEE AGVVST LI NGDWTFQ +V Sbjct: 131 TISPSRTEALNHHNLLVCSVTDFYPAQIKVQWFRNDQEETAGVVSTSLIRNGDWTFQILV 190 Query: 660 MLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQG 773 MLE PQ G++Y+C+VEHPSL SP+TVEWR R G Sbjct: 191 MLEITPQRGDIYTCQVEHPSLQSPITVEWRPRGPPPAG 228 >ref|NP_002112.3| major histocompatibility complex, class II, DP beta 1 precursor [Homo sapiens] Length = 258 Score = 259 bits (662), Expect = 3e-69 Identities = 127/217 (58%), Positives = 154/217 (70%) Frame = +3 Query: 135 ALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHYYNGEEILRFDSDV 314 ALT +L+VL + R TP NGT+R L+R+ YN EE RFDSDV Sbjct: 14 ALTALLMVLLTSVVQGRATPENYLFQGRQECYAFNGTQR--FLERYIYNREEFARFDSDV 71 Query: 315 GEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLVPRRAEPTVTVYPA 494 GE+RAVTELGRP A+ WNS+KDILE++RA D CRHNY + + RR +P V V P+ Sbjct: 72 GEFRAVTELGRPAAEYWNSQKDILEEKRAVPDRMCRHNYELGGPMTLQRRVQPRVNVSPS 131 Query: 495 KTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETV 674 K PLQHHNLLVC VT FYPG ++VRWF NGQEE AGVVST LI NGDWTFQ +VMLE Sbjct: 132 KKGPLQHHNLLVCHVTDFYPGSIQVRWFLNGQEETAGVVSTNLIRNGDWTFQILVMLEMT 191 Query: 675 PQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMS 785 PQ G+VY+C+VEH SL SPVTVEW+A+S+SA+ K ++ Sbjct: 192 PQQGDVYTCQVEHTSLDSPVTVEWKAQSDSARSKTLT 228 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: 53,426,807 Number of Sequences: 39411 Number of extensions: 1581641 Number of successful extensions: 6649 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 5197 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): 6568 length of database: 17,774,539 effective HSP length: 104 effective length of database: 13,675,795 effective search space used: 4143765885 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-005394 (1225 letters) Database: RefSeqMP 45,328 sequences; 21,768,885 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_034512.1| histocompatibility 2, class II antigen E beta [... 353 2e-97 Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 273 4e-73 Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 258 9e-69 Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 244 1e-64 Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 75 1e-13 Alignment gi|NP_032235.1| histocompatibility-2 complex class 1-like [Mus ... 72 2e-12 Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 71 2e-12 Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 70 5e-12 Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 68 2e-11 Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 64 2e-10 >ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus] Length = 264 Score = 353 bits (906), Expect = 2e-97 Identities = 168/255 (65%), Positives = 201/255 (78%) Frame = +3 Query: 129 MAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHYYNGEEILRFDS 308 +AA+ ++L VLSPP+AL RD+ P NGT+RVR L R++YN EE LRFDS Sbjct: 10 VAAVILLLTVLSPPVALVRDSRPWFLEYCKSECHFYNGTQRVRFLKRYFYNLEENLRFDS 69 Query: 309 DVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLVPRRAEPTVTVY 488 DVGE+RAVTELGRP+A++WNS+ +IL+++RA VDTYCRHNY I D FLVPRR EPTVTVY Sbjct: 70 DVGEFRAVTELGRPDAENWNSQPEILDEKRAAVDTYCRHNYEIFDNFLVPRRVEPTVTVY 129 Query: 489 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 668 P KTQPL+HHNLLVCSV+ FYPG++EVRWFRNG+EE G+VSTGL+ NGDWTFQT+VMLE Sbjct: 130 PTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQTLVMLE 189 Query: 669 TVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXXXXXXXXXIYFK 848 TVPQSGEVY+C+VEHPSLT PVTVEW+A+S SAQ KM+S IYF+ Sbjct: 190 TVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLSGVGGFVLGLLFLRAGLFIYFR 249 Query: 849 NQKGRPALQPTGLLS 893 NQKG+ LQPTGLLS Sbjct: 250 NQKGQSGLQPTGLLS 264 >ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus] Length = 287 Score = 273 bits (697), Expect = 4e-73 Identities = 136/230 (59%), Positives = 168/230 (73%) Frame = +3 Query: 96 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHY 275 M+ L RG +AA+ + L++L+PP+ L RD P NG ERV + R Sbjct: 1 MVSLWLPRGLCVAAVILSLMMLTPPVILVRDPRPRFLEQLKAECHYFNGKERVWSVTRFI 60 Query: 276 YNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLV 455 YN EE RF+SD G++ AVTELGRP + N++KD+L+ RA VD CR+NY + D F++ Sbjct: 61 YNQEEFARFNSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRASVDR-CRNNYDLVDIFML 119 Query: 456 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 635 +AEP VTVYPAKTQPL+HHNLLVCSV FYPG +EVRWFRNG+EE GVVSTGLI N Sbjct: 120 NLKAEPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNR 179 Query: 636 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMS 785 DWT+QT+VMLE VP+ GEVY+C+VEHPSLTSPVTVEWRARS SAQ K++S Sbjct: 180 DWTYQTLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKLLS 229 >ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus] Length = 265 Score = 258 bits (659), Expect = 9e-69 Identities = 133/255 (52%), Positives = 166/255 (65%), Gaps = 1/255 (0%) Frame = +3 Query: 129 MAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHYYNGEEILRFDS 308 ++A V+L+VLS P D+ NGT+R+R + R+ YN EE +R+DS Sbjct: 10 LSAAVVVLMVLSSPGTEGGDSERHFVYQFMGECYFTNGTQRIRYVTRYIYNREEYVRYDS 69 Query: 309 DVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLVPRRAE-PTVTV 485 DVGE+RAVTELGRP+A+ WNS+ +ILE+ RAE+DT CRHNY +T RR E P V + Sbjct: 70 DVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHTSLRRLEQPNVVI 129 Query: 486 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 665 ++T+ L HHN LVCSVT FYP ++VRWFRNGQEE GV ST LI NGDWTFQ +VML Sbjct: 130 SLSRTEALNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLVML 189 Query: 666 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXXXXXXXXXIYF 845 E P+ GEVY+C VEHPSL SP+TVEWRA+SESA KM+S I Sbjct: 190 EMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLSGIGGCVLGVIFLGLGLFIRH 249 Query: 846 KNQKGRPALQPTGLL 890 ++QKG P GLL Sbjct: 250 RSQKGPRGPPPAGLL 264 >ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus] Length = 271 Score = 244 bits (623), Expect = 1e-64 Identities = 123/254 (48%), Positives = 154/254 (60%) Frame = +3 Query: 117 RGFWMAALTVMLVVLSPPLALARDTPPXXXXXXXXXXXXXNGTERVRLLDRHYYNGEEIL 296 R W+ AL V L+ L + RD+P NGTE+V LL R +N EE L Sbjct: 5 RAPWVVALLVNLMRLDSFMIEGRDSPENFVIQAKADCYFTNGTEKVHLLVRFIFNLEEYL 64 Query: 297 RFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDTFLVPRRAEPT 476 FDSD+G + A+TELG P+A WN R D+LE RA V+ CR Y++ F V R P Sbjct: 65 HFDSDLGMFVALTELGEPDADQWNKRLDLLETSRAAVNMVCRQKYKLGAPFTVERNVPPE 124 Query: 477 VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTM 656 VTVYP +T LQ HNLL+CSVTGFYPG + V+WFRNGQEE +GV+STGL+ NGDWTFQT Sbjct: 125 VTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVRNGDWTFQTT 184 Query: 657 VMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSXXXXXXXXXXXXXXXXX 836 VMLE +P+ G++YSC VEHP L PV+V W A+SE + K++S Sbjct: 185 VMLEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILSGAAVFLLGLIVFLVGVV 244 Query: 837 IYFKNQKGRPALQP 878 I+ K QK QP Sbjct: 245 IHLKAQKASVETQP 258 >ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus] Length = 261 Score = 75.5 bits (184), Expect = 1e-13 Identities = 49/166 (29%), Positives = 78/166 (46%), Gaps = 9/166 (5%) Frame = +3 Query: 276 YNGEEILRFDSDVG-----EYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRIS 440 +N + + +D DVG E+ ++ L + N ++ ++ + + + H Sbjct: 46 FNKDLLACWDPDVGKIVPCEFGVLSRLAEIISNILNEQESLIHRLQNGLQDCATHTQPFW 105 Query: 441 DTFLVPRRAEPTVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGV 608 D L R P+V V A+T P +L C V GFYP V + W +NGQ + Sbjct: 106 DV-LTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNK 162 Query: 609 VSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 746 T PNGDWT+QT+ L P G+VY+C V+H + P+ +W Sbjct: 163 EKTAQ-PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207 >ref|NP_032235.1| histocompatibility-2 complex class 1-like [Mus musculus] Length = 341 Score = 71.6 bits (174), Expect = 2e-12 Identities = 44/154 (28%), Positives = 74/154 (48%), Gaps = 5/154 (3%) Frame = +3 Query: 267 RHYYNGEEILRFDSDVGEYRAVTELGRPEAKDWNSRKDILEQRRAEVDTYC-----RHNY 431 ++ Y+G++ + F+ D + A+ + + W + L+ ++ ++ C R Sbjct: 129 QYAYDGQDFIIFNKDTLSWLAMDYVAHITKQAWEANLHELQYQKNWLEEECIAWLKRFLE 188 Query: 432 RISDTFLVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVV 611 DT + R P V +T P C GFYP + + W +NG+E A V Sbjct: 189 YGRDT--LERTEHPVVRTTRKETFP--GITTFFCRAHGFYPPEISMTWMKNGEEIAQEVD 244 Query: 612 STGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEH 713 G++P+GD T+QT + + PQS +VYSC VEH Sbjct: 245 YGGVLPSGDGTYQTWLSVNLDPQSNDVYSCHVEH 278 >ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus] Length = 261 Score = 71.2 bits (173), Expect = 2e-12 Identities = 52/166 (31%), Positives = 81/166 (48%), Gaps = 9/166 (5%) Frame = +3 Query: 276 YNGEEILRFDSDVGEYRAVTELG--RPEAKDWN---SRKDILEQRRAEVDTYCRHNYRIS 440 +N + + +D DVG+ E G P A++++ ++++ L QR C + + Sbjct: 46 FNKDLLACWDPDVGKI-VPCEFGVLYPWAENFSRILNKEESLLQRLQNGLLDCASHTQPF 104 Query: 441 DTFLVPRRAEPTVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGV 608 L R P+V V A+T P +L C V GFYP V + W +NGQ + Sbjct: 105 WNALTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNK 162 Query: 609 VSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 746 T PNGDWT+QT+ L P G+VY+C V+H + P+ +W Sbjct: 163 EKTAQ-PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207 >ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus] Length = 256 Score = 70.1 bits (170), Expect = 5e-12 Identities = 31/92 (33%), Positives = 44/92 (47%) Frame = +3 Query: 471 PTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 650 P TV+P L N L+C V +P + + W RN + A GV T N D++F Sbjct: 114 PQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFH 173 Query: 651 TMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 746 + L +P ++Y C+VEH L PV W Sbjct: 174 KLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHW 205 >ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus] Length = 250 Score = 67.8 bits (164), Expect = 2e-11 Identities = 46/160 (28%), Positives = 67/160 (41%), Gaps = 1/160 (0%) Frame = +3 Query: 270 HYYNGEEILRFDSDVGEYR-AVTELGRPEAKDWNSRKDILEQRRAEVDTYCRHNYRISDT 446 H ++GE+I D E + E G D+ S + +A +D + R Sbjct: 50 HEFDGEQIFSVDLKNEEVVWRLPEFGDFAHSDFQSGLMSISMIKAHLDILVERSNRTRAV 109 Query: 447 FLVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLI 626 + PR VTV P L N+L+C V +P + V W RN Q GV T Sbjct: 110 SVPPR-----VTVLPKTRVELGKPNVLICIVDDIFPPVINVTWLRNSQPITKGVAQTSFY 164 Query: 627 PNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 746 + F+ L VP + +VY C+VEH L +P+ W Sbjct: 165 SQPNHRFRKFHYLTFVPSAEDVYDCKVEHWGLDTPLLQHW 204 >ref|NP_034511.2| histocompatibility 2, class II antigen E alpha [Mus musculus] Length = 255 Score = 64.3 bits (155), Expect = 2e-10 Identities = 32/92 (34%), Positives = 43/92 (46%) Frame = +3 Query: 471 PTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 650 P VTV L N+L+C + F P V V WFRNG+ GV T +P D F+ Sbjct: 112 PEVTVLSRSPVNLGEPNILICFIDKFSPPVVNVTWFRNGRPVTEGVSETVFLPRDDHLFR 171 Query: 651 TMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 746 L +P + + Y C V+H L P+ W Sbjct: 172 KFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHW 203 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: 62,670,381 Number of Sequences: 45328 Number of extensions: 1776607 Number of successful extensions: 6948 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 5704 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): 6891 length of database: 21,768,885 effective HSP length: 106 effective length of database: 16,964,117 effective search space used: 5106199217 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)