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= UTR01_0087_G10
(1233 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, ... 416 e-116
Alignment gi|XP_582099.2| PREDICTED: similar to major histocompatibility ... 349 2e-96
Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 308 4e-84
Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 294 9e-80
Alignment gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati... 283 2e-76
Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 264 1e-70
Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 261 1e-69
Alignment gi|XP_874766.1| PREDICTED: similar to HLA class II histocompati... 210 2e-54
Alignment gi|NP_001012399.1| hemochromatosis [Bos taurus] 79 7e-15
Alignment gi|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus] 77 2e-14
>ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus]
Length = 266
Score = 416 bits (1069), Expect = e-116
Identities = 199/266 (74%), Positives = 219/266 (82%)
Frame = +1
Query: 64 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 243
M+ L FS G WMAAL +ML+VL PPLA AR+ PHFL K ECHFFNGTERVRFLDR+F
Sbjct: 1 MVCLYFSGGSWMAALIVMLMVLCPPLAWAREIQPHFLEYYKGECHFFNGTERVRFLDRHF 60
Query: 244 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 423
YNG+E+VRFDSD GEFR VTE GRP A++WNSQKDF+EQKRAEVD VCRHNY +E+F V
Sbjct: 61 YNGEEFVRFDSDWGEFRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTV 120
Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
RR EP VTVYPAKTQPLQHHNLLVCSV GFYPGH+EVRWFRNG EE AGV+STGLI NG
Sbjct: 121 QRRVEPTVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNG 180
Query: 604 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
DWTFQTMVMLETVPQSGEVYTC+V+HP TSP+TVEWRARS+SAQ KMMSG+
Sbjct: 181 DWTFQTMVMLETVPQSGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMSGVGGFVLGLL 240
Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
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 = 349 bits (896), Expect = 2e-96
Identities = 169/252 (67%), Positives = 194/252 (76%)
Frame = +1
Query: 97 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDS 276
MAAL ++L+VLS P + AR+T PHF+ K EC F NG ER+RF RY YN E V FDS
Sbjct: 1 MAALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDS 60
Query: 277 DVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTVY 456
DVGEF +TE GR DA+YWN QKDFMEQ RA+VDT+CR NY+ + +FL RR EP VTVY
Sbjct: 61 DVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVY 120
Query: 457 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 636
PAKTQPLQHHNLLVCSV GFYPGH+EVRWF N EE AGV+STGLI NGDWTFQTMVMLE
Sbjct: 121 PAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQNGDWTFQTMVMLE 180
Query: 637 TVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 816
TVPQSGEVYTC+VEHPS TSP+TVEWRA+S+SAQ K+MSGI I+ +
Sbjct: 181 TVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQRKLMSGIGGFVLGLLFLGVGLFIHLR 240
Query: 817 NQKGRPALQPTG 852
++KG PALQP G
Sbjct: 241 SKKGHPALQPIG 252
>ref|NP_001029840.2| MHC class II antigen [Bos taurus]
Length = 261
Score = 308 bits (790), Expect = 4e-84
Identities = 149/257 (57%), Positives = 181/257 (70%)
Frame = +1
Query: 58 SSMLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDR 237
S M+ L RG W A + + LV+LS P A RD+P F+ K C+F NGTERVR++ R
Sbjct: 2 SGMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGLCYFTNGTERVRYVTR 61
Query: 238 YFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETF 417
Y YN +EYVRFDSD +R +T GRPDA+YWNSQKDF+EQ RAE DTVCRHNY+
Sbjct: 62 YIYNQEEYVRFDSDWDLYRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAELIT 121
Query: 418 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 597
+ RR EP VT+ P++T+ L HHNLLVCSVT FYP ++VRWFRN +EE AGVVST LI
Sbjct: 122 SLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLIR 181
Query: 598 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 777
NGDWTFQ +VMLE PQ G+VYTC VEHPSL SP+ VEWRA+SESAQ KM+SG+
Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLSGVGGFVLG 241
Query: 778 XXXXXXXXXIYFKNQKG 828
I+ ++QKG
Sbjct: 242 LIFLGLGLIIHHRSQKG 258
>ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus]
Length = 261
Score = 294 bits (753), Expect = 9e-80
Identities = 141/257 (54%), Positives = 181/257 (70%)
Frame = +1
Query: 58 SSMLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDR 237
S M+ L RG W AA+ + L VLS P A RD+P + +C+F NGTERVR++ R
Sbjct: 2 SGMVALRIPRGLWTAAVMVTLAVLSTPGAEGRDSPQDTVVHFMGQCYFTNGTERVRYVTR 61
Query: 238 YFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETF 417
Y YN +E +DSDVGE+R VT+ GR A+YWNSQKD +EQ RAE+DTVCRHNY++
Sbjct: 62 YIYNQEETAYYDSDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEVIT 121
Query: 418 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 597
+ R+ EP VT+ ++T+ L HHNLLVCSVT FYPG ++VRWF+NG+EE AG+VST LI
Sbjct: 122 SLQRQVEPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIR 181
Query: 598 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 777
NGDWTFQ +VMLE P+ G+VYTC VEHPSL SP++VEWRA+SESAQ KM+SG+
Sbjct: 182 NGDWTFQILVMLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKMLSGVGGFVLG 241
Query: 778 XXXXXXXXXIYFKNQKG 828
+ ++QKG
Sbjct: 242 LIFLGLGLIVRRRSQKG 258
>ref|XP_876139.1| PREDICTED: similar to H-2 class II histocompatibility antigen, I-E
beta chain precursor [Bos taurus]
Length = 269
Score = 283 bits (724), Expect = 2e-76
Identities = 133/193 (68%), Positives = 151/193 (78%)
Frame = +1
Query: 181 GKAECHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQ 360
GK+ECHF NGT++VRFLDRY YN +E V+FDS VGE+R TE GRP A+ WN +++
Sbjct: 4 GKSECHFSNGTQQVRFLDRYIYNREEQVQFDSLVGEYRARTEMGRPAAERWNRWPQALQR 63
Query: 361 KRAEVDTVCRHNYEILETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVR 540
RA V C NYE + V RR +P VTVYP K++PL HHNLLVCSV GFYPGH+EVR
Sbjct: 64 ARAAVHAYCASNYEFFASRTVQRRVQPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVR 123
Query: 541 WFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRA 720
WFRNGQEE AGVVSTGLIPNGDWTFQ MVMLE VPQ GEVY C VEHPS TSPVTVEWRA
Sbjct: 124 WFRNGQEEEAGVVSTGLIPNGDWTFQIMVMLEIVPQGGEVYACHVEHPSRTSPVTVEWRA 183
Query: 721 RSESAQGKMMSGI 759
+ ES+Q KM+SGI
Sbjct: 184 QDESSQEKMLSGI 196
>ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus]
Length = 259
Score = 264 bits (674), Expect = 1e-70
Identities = 129/215 (60%), Positives = 154/215 (71%)
Frame = +1
Query: 115 MLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEFR 294
+ +VL P A RD P +F++ K C+F NGTE VR + R YN +E + FDSD+GEF
Sbjct: 19 VFLVLRIPEAHCRDAPKNFVYQFKGMCYFTNGTEHVRLVARQIYNKEEILHFDSDLGEFV 78
Query: 295 EVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTVYPAKTQP 474
VTE GR A+ WN+QKD + + RA VDT+CRHNY+ F V RR EP VTV PA T+
Sbjct: 79 AVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYKETAGFTVQRRVEPTVTVSPASTEA 138
Query: 475 LQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSG 654
L HHNLLVCSVT FYP V+V+WFRN QE+ AGV T L NGDWT+Q VMLETVPQ G
Sbjct: 139 LNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGFTPLTQNGDWTYQIHVMLETVPQLG 198
Query: 655 EVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 759
+VY C V+HPSL SP+TVEWRA+SESAQ KM SGI
Sbjct: 199 DVYVCHVDHPSLQSPITVEWRAQSESAQSKMQSGI 233
>ref|NP_001013618.1| major histocompatibility complex, class II, DO beta [Bos taurus]
Length = 271
Score = 261 bits (666), Expect = 1e-69
Identities = 122/246 (49%), Positives = 162/246 (65%)
Frame = +1
Query: 94 WMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFD 273
W+ + L + RD+P F+ KA+C+F NGTE+VRF+ R+ +N ++Y RFD
Sbjct: 8 WVVTFLSTALRLDASVTQGRDSPEDFVTQAKADCYFTNGTEKVRFVVRFIFNLEDYARFD 67
Query: 274 SDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTV 453
SD+G F +TE G+PDA+ WN++ D + + RA VD +CR NY + F V RR +P VTV
Sbjct: 68 SDLGMFVALTELGKPDAERWNNRPDILARSRASVDMLCRRNYYLGAPFTVGRRVQPEVTV 127
Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633
YP KT LQH NLL+C VTGFYPG ++V WFRNGQE+ G++STGLI NGDWTFQ VML
Sbjct: 128 YPEKTPALQHRNLLLCLVTGFYPGDIKVTWFRNGQEQREGIMSTGLIRNGDWTFQMTVML 187
Query: 634 ETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 813
P+ GEVYTC V+HPSL SPV+VEWRA+SE + K++SG ++
Sbjct: 188 AMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILSGAAAFLVGLVFFLVEIVVHI 247
Query: 814 KNQKGR 831
+ 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 = 210 bits (535), Expect = 2e-54
Identities = 125/272 (45%), Positives = 152/272 (55%), Gaps = 2/272 (0%)
Frame = +1
Query: 46 PLLFSSMLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVR 225
P LF+S + L FS+G WMAAL +M+ LSP L AR+T
Sbjct: 7 PFLFASTVCLYFSKGSWMAALLVMMG-LSPLLTWARETQ--------------------- 44
Query: 226 FLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRH--NY 399
Y +V DS + G+P A + D C H
Sbjct: 45 ------YKRTPWVVIDSQISAISH----GKPCALNGYRECDG-----------CFHPIGL 83
Query: 400 EILETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVV 579
+ + ++ EP VTVYPAKTQPLQH++LLVCSV GFY GHVEVRWF GQEE AGV+
Sbjct: 84 KANRDITLQKKVEPTVTVYPAKTQPLQHNHLLVCSVNGFYLGHVEVRWFWKGQEEEAGVI 143
Query: 580 STGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 759
STGLI NGDWTF+T+VMLETV QSGEVYTC++EHPS SP+ EWRA+S+SAQ KMMSG
Sbjct: 144 STGLIQNGDWTFETIVMLETVLQSGEVYTCQLEHPSWRSPIAEEWRAQSDSAQSKMMSGT 203
Query: 760 XXXXXXXXXXXXXXXIYFKNQKGRPALQPTGL 855
+F+NQKG LQPTG+
Sbjct: 204 GGFALGLLFLVVGLFTHFRNQKGHSGLQPTGI 235
>ref|NP_001012399.1| hemochromatosis [Bos taurus]
Length = 356
Score = 79.0 bits (193), Expect = 7e-15
Identities = 52/179 (29%), Positives = 84/179 (46%), Gaps = 4/179 (2%)
Frame = +1
Query: 235 RYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNY-EILE 411
+Y Y+G +++ F + ++R + W K +Q RA +D C +LE
Sbjct: 145 KYGYDGQDHLEFRPETLDWRAAEPRAQVTKLEWEVNKIRAKQNRAYLDRDCPEQLLHLLE 204
Query: 412 TFLVP--RRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQE-EAAGVVS 582
P ++ P V V T L L C FYP ++ +RW ++ Q +A +
Sbjct: 205 LGRGPLEQQVPPLVKVTHHVTSSL---TTLRCRALNFYPQNITIRWLKDKQFLDAKEIKP 261
Query: 583 TGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 759
++PNGD T+Q V L +P + Y+C+VEHP L P+T W S G +++GI
Sbjct: 262 EDVLPNGDGTYQAWVALAMLPGEEQRYSCQVEHPGLDQPLTATW---EPSLSGTLVTGI 317
>ref|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus]
Length = 299
Score = 77.4 bits (189), Expect = 2e-14
Identities = 51/210 (24%), Positives = 94/210 (44%), Gaps = 3/210 (1%)
Frame = +1
Query: 112 MMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEF 291
+ + LS + +D F G C N F Y Y+G ++++FD ++ +
Sbjct: 93 IFMETLSDIMDYYKDREGSHTFQGAFGCELRNNESSGAFWG-YAYDGQDFIKFDKEIPAW 151
Query: 292 REVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCR---HNYEILETFLVPRRAEPRVTVYPA 462
+ + + W ++ ++++ +A ++ C Y + R+ P V+V
Sbjct: 152 VPLDPAAQNTKRKWEAEAVYVQRAKAYLEEECPGMLRRYLPYSRTHLDRQESPSVSV-TG 210
Query: 463 KTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETV 642
P H L C FYP + + W R G + A ++P+G+ T+Q+ V++
Sbjct: 211 HAAP-GHKRTLKCLAYDFYPRSIGLHWTRAGDAQEAES-GGDVLPSGNGTYQSWVVVGVP 268
Query: 643 PQSGEVYTCRVEHPSLTSPVTVEWRARSES 732
P+ Y+C VEH SLT P+TV W R ++
Sbjct: 269 PEDQAPYSCHVEHRSLTRPLTVPWDPRQQA 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: 45,278,457
Number of Sequences: 33508
Number of extensions: 1295185
Number of successful extensions: 4909
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 4141
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): 4866
length of database: 16,112,626
effective HSP length: 104
effective length of database: 12,627,794
effective search space used: 3864104964
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= UTR01_0087_G10
(1233 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... 392 e-109
Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 339 3e-93
Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 286 3e-77
Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 270 2e-72
Alignment gi|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein... 74 4e-13
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] 70 6e-12
Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 68 2e-11
Alignment gi|NP_001014767.1| MHC class I DLA-88 [Canis familiaris] 68 2e-11
Alignment gi|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris] 67 3e-11
>ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris]
Length = 266
Score = 392 bits (1008), Expect = e-109
Identities = 186/266 (69%), Positives = 213/266 (80%)
Frame = +1
Query: 64 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 243
M+ LCF G WM AL ++L+VL+PP A ARDTPPHFL + K+EC+F NGTERVRF++RY
Sbjct: 1 MVCLCFLGGSWMTALMLILMVLNPPFAWARDTPPHFLEVAKSECYFTNGTERVRFVERYI 60
Query: 244 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 423
+N +E+VRFDSDVGEFR VTE GRP A+ WN QK+ +EQ+RA VDT CRHNY ++E+F V
Sbjct: 61 HNREEFVRFDSDVGEFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYGVIESFTV 120
Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
RR EP VTVYP KTQ LQHHNLLVCSV GFYPGH+EVRW RNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNG 180
Query: 604 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
DWTFQ +VMLE VPQSGEVYTC+VEHPSLTSPVTVEWRA+S+SAQ KM+SGI
Sbjct: 181 DWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLSGIGGFVLGLL 240
Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
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 = 339 bits (870), Expect = 3e-93
Identities = 165/267 (61%), Positives = 195/267 (73%)
Frame = +1
Query: 58 SSMLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDR 237
S + LC RGFW AA+ M+LVVLS P+A RD+P F+F KAEC+F NGTERVR L +
Sbjct: 2 SGKMTLCIPRGFWTAAVMMILVVLSIPVAEGRDSPQDFVFQYKAECYFTNGTERVRLLTK 61
Query: 238 YFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETF 417
Y YN +E+VRFDSDVGEFR VTE GRPDA+YWN QKD M++ RAE+DTVCRHNY E
Sbjct: 62 YIYNREEFVRFDSDVGEFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREELT 121
Query: 418 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 597
+ RR EP VT++P+KT+ L HHNLLVCSVT FYPG ++VRWFRN QE+ AGVVST LI
Sbjct: 122 TLQRRVEPTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIR 181
Query: 598 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 777
NGDWTFQ +VMLE PQ G+VYTC VEH SL SP+TV+WRA+SESAQ KM+SGI
Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLSGIGGFVLG 241
Query: 778 XXXXXXXXXIYFKNQKGRPALQPTGLL 858
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 = 286 bits (732), Expect = 3e-77
Identities = 135/253 (53%), Positives = 173/253 (68%)
Frame = +1
Query: 94 WMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFD 273
WM AL + + L + RD+P F+ KA+C+F NGTE+V+F+ R+ +N +EY RFD
Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67
Query: 274 SDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTV 453
S VG F +TE G+PDA+ WNSQ +E+ RA VD +CRHNYE+ F V R+ +P VTV
Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127
Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633
YP +T +QHHNLL+CSVTGFYPG ++++WFRNGQEE GV+STGLI NGDWTFQTMVML
Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187
Query: 634 ETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 813
E P+ G+VYTC V HPSL SPV+VEWRA+S + KM+SGI I
Sbjct: 188 EMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLSGIAAFLLGLIFLLVGTVICL 247
Query: 814 KNQKGRPALQPTG 852
+ 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 = 270 bits (690), Expect = 2e-72
Identities = 121/207 (58%), Positives = 154/207 (74%)
Frame = +1
Query: 94 WMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFD 273
WM AL + + L + RD+P F+ KA+C+F NGTE+V+F+ R+ +N +EY RFD
Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67
Query: 274 SDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTV 453
S VG F +TE G+PDA+ WNSQ +E+ RA VD +CRHNYE+ F V R+ +P VTV
Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127
Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633
YP +T +QHHNLL+CSVTGFYPG ++++WFRNGQEE GV+STGLI NGDWTFQTMVML
Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187
Query: 634 ETVPQSGEVYTCRVEHPSLTSPVTVEW 714
E P+ G+VYTC V HPSL SPV+VEW
Sbjct: 188 EMTPELGDVYTCLVNHPSLLSPVSVEW 214
>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 = 73.6 bits (179), Expect = 4e-13
Identities = 54/219 (24%), Positives = 103/219 (47%), Gaps = 8/219 (3%)
Frame = +1
Query: 112 MMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEF 291
+ +V L + +D F G C N F RY Y+G ++ F+ ++ +
Sbjct: 96 IFMVTLKDIMEYYKDKEGSHTFQGMFGCELQNNKNSGAFW-RYAYDGRNFIEFNKEIPAW 154
Query: 292 REVTEFGRPDAKYWNSQKDFMEQKRAEVDTVC----RHNYEILETFLVPRRAEPRVTVYP 459
K W +++ ++++ +A ++ C + E +T+L R+ P V++
Sbjct: 155 VPQDPAALNTKKKWEAEEVYVQRAKAYLEEECPVMLQRYLEYGKTYL-DRQEPPSVSITS 213
Query: 460 AKTQPLQHHNLLVCSVTGFYPGHVEVRWFR--NGQEEAAGVVSTGLIPNGDWTFQTMVML 633
T + L C V+GFYP +++ W + + QE +G L+P+G+ T+Q V++
Sbjct: 214 HGTP--EGIQTLKCWVSGFYPQEIDLHWIQADDTQETKSG---GALLPSGNNTYQAWVVM 268
Query: 634 ETVPQ--SGEVYTCRVEHPSLTSPVTVEWRARSESAQGK 744
PQ + Y+C V+H SL+ P+TV W R + + +
Sbjct: 269 SASPQDLASFSYSCLVKHSSLSQPLTVLWDKRQGAVRAE 307
>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 = 40/127 (31%), Positives = 61/127 (48%), Gaps = 1/127 (0%)
Frame = +1
Query: 337 SQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGF 516
+Q++++ Q+ + C + + L R P V V + + +L C V GF
Sbjct: 81 NQQEYLHQRLSNGLQDCATHTQSFWGSLTHRTRPPTVQVAKSTPFNTKESVMLACYVWGF 140
Query: 517 YPGHVEVRWFRNGQEEAAGVVSTGLI-PNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLT 693
YP V + W +NGQ + + + PNGDWT+QT+ L T P + YTC VEH
Sbjct: 141 YPADVTISWRKNGQPVPSHSSALNMAQPNGDWTYQTVSHLATTPSYEDTYTCVVEHIGAP 200
Query: 694 SPVTVEW 714
PV +W
Sbjct: 201 EPVCEDW 207
>ref|NP_001018646.1| MHC class Ib [Canis familiaris]
Length = 381
Score = 69.7 bits (169), Expect = 6e-12
Identities = 47/178 (26%), Positives = 80/178 (44%), Gaps = 7/178 (3%)
Frame = +1
Query: 220 VRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNS------QKDFMEQKRAEVDT 381
+R R+ Y+G +Y+ D+ + + + W++ +K+F+E + E
Sbjct: 140 LRGYQRHAYDGLDYITLSEDLRSWIVEDPVAQITRRKWDAATVAENRKNFLEGRCLE--W 197
Query: 382 VCRHNYEILETFLVPRRAEPRVTVYPAKTQPLQHHNL-LVCSVTGFYPGHVEVRWFRNGQ 558
+ RH ET +RA+P T +P+ H + L C GFYP + + W R+G+
Sbjct: 198 LRRHLENGRETL---QRADPPKT--SVTRRPISEHEVTLKCWALGFYPAEITLTWQRDGE 252
Query: 559 EEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSES 732
++ P GD TFQ + + YTC + 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 = 68.2 bits (165), Expect = 2e-11
Identities = 45/158 (28%), Positives = 67/158 (42%), Gaps = 1/158 (0%)
Frame = +1
Query: 244 YNGDEYVRFDSDVGE-FREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFL 420
++GDE D + E + EFGR + + +A +DT+ + + T
Sbjct: 51 FDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDTMIKRSNHTPNT-- 108
Query: 421 VPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPN 600
P VTV L N+L+C + F P + V W RNG GV T +P
Sbjct: 109 ---NVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGVSETIFLPR 165
Query: 601 GDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 714
D F+ L +P + +VY C+VEH L P+ W
Sbjct: 166 EDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHW 203
>ref|NP_001014767.1| MHC class I DLA-88 [Canis familiaris]
Length = 361
Score = 67.8 bits (164), Expect = 2e-11
Identities = 49/181 (27%), Positives = 75/181 (41%), Gaps = 7/181 (3%)
Frame = +1
Query: 193 CHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAE 372
C G +R + Y+G +Y+ + D+ + + + W + E R
Sbjct: 125 CDLGPGGRLLRGYSQDAYDGADYIALNEDLRSWTAADTAAQITRRKWEAAGT-AEHDRNY 183
Query: 373 VDTVC----RHNYEILETFLVPRRAEP---RVTVYPAKTQPLQHHNLLVCSVTGFYPGHV 531
++T C R E+ + L+ RAEP RVT +P H L C GFYP +
Sbjct: 184 LETTCVEWLRRYLEMGKETLL--RAEPPSTRVTRHPIS----DHEVTLRCWALGFYPAEI 237
Query: 532 EVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVE 711
+ W R+G+++ P GD TFQ + + YTC V+H L PVT
Sbjct: 238 TLTWQRDGEDQTQDTEVVDTRPAGDGTFQKWAAVVVPSGQEQRYTCHVQHEGLAEPVTRR 297
Query: 712 W 714
W
Sbjct: 298 W 298
>ref|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris]
Length = 381
Score = 67.4 bits (163), Expect = 3e-11
Identities = 46/178 (25%), Positives = 79/178 (44%), Gaps = 7/178 (3%)
Frame = +1
Query: 220 VRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNS------QKDFMEQKRAEVDT 381
+R R+ Y+G +Y+ D+ + + + W++ +K+F+E + E
Sbjct: 140 LRGYQRHAYDGLDYITLSEDLRSWIVEDPVAQITRRKWDAATVAENRKNFLEGRCLE--W 197
Query: 382 VCRHNYEILETFLVPRRAEPRVTVYPAKTQPLQHHNL-LVCSVTGFYPGHVEVRWFRNGQ 558
+ RH ET +RA+P T +P+ H + L C GFYP + + W R+G+
Sbjct: 198 LRRHLENGRETL---QRADPPKT--SVTRRPISEHEVTLKCWALGFYPAEITLTWQRDGE 252
Query: 559 EEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSES 732
++ P GD TFQ + + YTC + H SL P+T+ W +S
Sbjct: 253 DQTQDTELVETRPGGDGTFQKWAAVVVPSGEEQRYTCHILHKSLPKPITLRWEPPPQS 310
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: 53,133,990
Number of Sequences: 33732
Number of extensions: 1516983
Number of successful extensions: 5777
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 4806
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): 5749
length of database: 19,266,565
effective HSP length: 105
effective length of database: 15,724,705
effective search space used: 4796035025
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= UTR01_0087_G10
(1233 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 ... 386 e-107
Alignment gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati... 381 e-106
Alignment gi|NP_002116.2| major histocompatibility complex, class II, DR ... 379 e-105
Alignment gi|NP_072049.2| major histocompatibility complex, class II, DR ... 378 e-105
Alignment gi|NP_068818.4| major histocompatibility complex, class II, DR ... 374 e-104
Alignment gi|XP_949915.1| PREDICTED: similar to HLA class II histocompati... 351 8e-97
Alignment gi|XP_949921.1| PREDICTED: similar to HLA class II histocompati... 334 8e-92
Alignment gi|NP_002114.2| major histocompatibility complex, class II, DQ ... 302 3e-82
Alignment gi|NP_002112.3| major histocompatibility complex, class II, DP ... 292 4e-79
Alignment gi|NP_872355.1| major histocompatibility complex, class II, DQ ... 282 4e-76
>ref|NP_002115.1| major histocompatibility complex, class II, DR beta 1 precursor
[Homo sapiens]
Length = 266
Score = 386 bits (991), Expect = e-107
Identities = 188/266 (70%), Positives = 212/266 (79%)
Frame = +1
Query: 64 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 243
M+ L G M ALT+ L+VLS PLALA DT P FL+ K ECHFFNGTERVR L+R
Sbjct: 1 MVCLKLPGGSCMTALTVTLMVLSSPLALAGDTRPRFLWQLKFECHFFNGTERVRLLERCI 60
Query: 244 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 423
YN +E VRFDSDVGE+R VTE GRPDA+YWNSQKD +EQ+RA VDT CRHNY + E+F V
Sbjct: 61 YNQEESVRFDSDVGEYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTV 120
Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
RR EP+VTVYP+KTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 604 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
DWTFQT+VMLETVP+SGEVYTC+VEHPS+TSP+TVEWRARSESAQ KM+SG+
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240
Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
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 = 381 bits (979), Expect = e-106
Identities = 188/266 (70%), Positives = 210/266 (78%)
Frame = +1
Query: 64 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 243
M+ L G MAALT+ L+VLS PLALA DT P FL K ECHFFNGTERVR+L R
Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60
Query: 244 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 423
YN +E VRFDSDVGE+R VTE GRP A+ WNSQKDF+E++RAEVDTVCRHNY + E+F V
Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120
Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 604 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
DWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TVEWRARSESAQ KM+SG+
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240
Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
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 = 379 bits (972), Expect = e-105
Identities = 185/266 (69%), Positives = 209/266 (78%)
Frame = +1
Query: 64 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 243
M+ L G +MA LT+ L+VLS PLALA DT P FL K ECHFFNGTERVRFL R
Sbjct: 1 MVCLKLPGGSYMAKLTVTLMVLSSPLALAGDTRPRFLQQDKYECHFFNGTERVRFLHRDI 60
Query: 244 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 423
YN +E +RFDSDVGE+R VTE GRPDA+YWNSQKDF+E +RA VDT CRHNY + E+F V
Sbjct: 61 YNQEEDLRFDSDVGEYRAVTELGRPDAEYWNSQKDFLEDRRAAVDTYCRHNYGVGESFTV 120
Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
RR EP+VTVYPA+TQ LQHHNLLVCSV GFYPG +EVRWFRN QEE AGVVSTGLI NG
Sbjct: 121 QRRVEPKVTVYPARTQTLQHHNLLVCSVNGFYPGSIEVRWFRNSQEEKAGVVSTGLIQNG 180
Query: 604 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
DWTFQT+VMLETVP+SGEVYTC+VEHPS+TSP+TVEWRA+SESAQ KM+SG+
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRAQSESAQSKMLSGVGGFVLGLL 240
Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
IYFKNQKG L PTGL+S
Sbjct: 241 FLGAGLFIYFKNQKGHSGLHPTGLVS 266
>ref|NP_072049.2| major histocompatibility complex, class II, DR beta 3 precursor
[Homo sapiens]
Length = 266
Score = 378 bits (970), Expect = e-105
Identities = 184/266 (69%), Positives = 210/266 (78%)
Frame = +1
Query: 64 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 243
M+ L G +AALT+ L+VLS LA A DT P FL L K+ECHFFNGTERVR+LDRYF
Sbjct: 1 MVCLKLPGGSSLAALTVTLMVLSSRLAFAGDTRPRFLELRKSECHFFNGTERVRYLDRYF 60
Query: 244 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 423
+N +E++RFDSDVGE+R VTE GRP A+ WNSQKD +EQKR VD CRHNY + E+F V
Sbjct: 61 HNQEEFLRFDSDVGEYRAVTELGRPVAESWNSQKDLLEQKRGRVDNYCRHNYGVGESFTV 120
Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
RR P+VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPQVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 604 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
DWTFQT+VMLETVP+SGEVYTC+VEHPS+TS +TVEWRARSESAQ KM+SG+
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSALTVEWRARSESAQSKMLSGVGGFVLGLL 240
Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
IYF+NQKG LQPTG LS
Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266
>ref|NP_068818.4| major histocompatibility complex, class II, DR beta 4 precursor
[Homo sapiens]
Length = 266
Score = 374 bits (961), Expect = e-104
Identities = 180/266 (67%), Positives = 209/266 (78%)
Frame = +1
Query: 64 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 243
M+ L G MAALT+ L VLS PLALA DT P FL K ECHF NGTERV L RY
Sbjct: 1 MVCLKLPGGSCMAALTVTLTVLSSPLALAGDTQPRFLEQAKCECHFLNGTERVWNLIRYI 60
Query: 244 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 423
YN +EY R++SD+GE++ VTE GRPDA+YWNSQKD +E++RAEVDT CR+NY ++E+F V
Sbjct: 61 YNQEEYARYNSDLGEYQAVTELGRPDAEYWNSQKDLLERRRAEVDTYCRYNYGVVESFTV 120
Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
RR +P+VTVYP+KTQPLQHHNLLVCSV GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 604 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
DWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TV+W ARSESAQ KM+SG+
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLSGVGGFVLGLL 240
Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
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 = 351 bits (900), Expect = 8e-97
Identities = 168/231 (72%), Positives = 187/231 (80%)
Frame = +1
Query: 169 FLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKD 348
FL K ECHFFNGTERVR+L R YN +E VRFDSDVGE+R VTE GRP A+ WNSQKD
Sbjct: 54 FLKQDKFECHFFNGTERVRYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKD 113
Query: 349 FMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGH 528
F+E++RAEVDTVCRHNY + E+F V RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG
Sbjct: 114 FLERRRAEVDTVCRHNYGVGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGS 173
Query: 529 VEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTV 708
+EVRWFRNGQEE AGVVSTGLI NGDWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TV
Sbjct: 174 IEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTV 233
Query: 709 EWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFKNQKGRPALQPTGLLS 861
EWRARSESAQ KM+SG+ IYF+NQKG LQPTG LS
Sbjct: 234 EWRARSESAQSKMLSGVGGFVLGLLFLGAGLFIYFRNQKGHSGLQPTGFLS 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 = 334 bits (857), Expect = 8e-92
Identities = 162/217 (74%), Positives = 181/217 (83%)
Frame = +1
Query: 64 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 243
M+ L G MAALT+ L+VLS PLALA DT P FL K ECHFFNGTERVR+L R
Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60
Query: 244 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 423
YN +E VRFDSDVGE+R VTE GRP A+ WNSQKDF+E++RAEVDTVCRHNY + E+F V
Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120
Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 604 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 714
DWTFQT+VMLETVP+SGEVYTC+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 = 302 bits (774), Expect = 3e-82
Identities = 147/247 (59%), Positives = 177/247 (71%)
Frame = +1
Query: 88 GFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVR 267
G A +T+ML +LS P+A RD+P F++ K C+F NGTERVR + R YN +E VR
Sbjct: 12 GLRAATVTLMLSMLSTPVAEGRDSPEDFVYQFKGMCYFTNGTERVRLVSRSIYNREEIVR 71
Query: 268 FDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRV 447
FDSDVGEFR VT G P A+YWNSQKD +E+KRA VD VCRHNY++ + RR EP V
Sbjct: 72 FDSDVGEFRAVTLLGLPAAEYWNSQKDILERKRAAVDRVCRHNYQLELRTTLQRRVEPTV 131
Query: 448 TVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMV 627
T+ P++T+ L HHNLLVCSVT FYP ++VRWFRN QEE AGVVST LI NGDWTFQ +V
Sbjct: 132 TISPSRTEALNHHNLLVCSVTDFYPAQIKVRWFRNDQEETAGVVSTPLIRNGDWTFQILV 191
Query: 628 MLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXI 807
MLE PQ G+VYTC VEHPSL SP+TVEWRA+SESAQ KM+SGI I
Sbjct: 192 MLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGIGGFVLGLIFLGLGLII 251
Query: 808 YFKNQKG 828
+ ++QKG
Sbjct: 252 HHRSQKG 258
>ref|NP_002112.3| major histocompatibility complex, class II, DP beta 1 precursor
[Homo sapiens]
Length = 258
Score = 292 bits (748), Expect = 4e-79
Identities = 138/218 (63%), Positives = 168/218 (77%)
Frame = +1
Query: 103 ALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDSDV 282
ALT +L+VL + R TP ++LF G+ EC+ FNGT+R FL+RY YN +E+ RFDSDV
Sbjct: 14 ALTALLMVLLTSVVQGRATPENYLFQGRQECYAFNGTQR--FLERYIYNREEFARFDSDV 71
Query: 283 GEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTVYPA 462
GEFR VTE GRP A+YWNSQKD +E+KRA D +CRHNYE+ + RR +PRV V P+
Sbjct: 72 GEFRAVTELGRPAAEYWNSQKDILEEKRAVPDRMCRHNYELGGPMTLQRRVQPRVNVSPS 131
Query: 463 KTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETV 642
K PLQHHNLLVC VT FYPG ++VRWF NGQEE AGVVST LI NGDWTFQ +VMLE
Sbjct: 132 KKGPLQHHNLLVCHVTDFYPGSIQVRWFLNGQEETAGVVSTNLIRNGDWTFQILVMLEMT 191
Query: 643 PQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSG 756
PQ G+VYTC+VEH SL SPVTVEW+A+S+SA+ K ++G
Sbjct: 192 PQQGDVYTCQVEHTSLDSPVTVEWKAQSDSARSKTLTG 229
>ref|NP_872355.1| major histocompatibility complex, class II, DQ beta 2 [Homo
sapiens]
Length = 231
Score = 282 bits (722), Expect = 4e-76
Identities = 136/218 (62%), Positives = 162/218 (74%)
Frame = +1
Query: 88 GFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVR 267
GFW AA+T+MLV+LS P+A ARD P FL K C+F NGTERVR + RY YN +EY R
Sbjct: 12 GFWAAAVTVMLVMLSTPVAEARDFPKDFLVQFKGMCYFTNGTERVRGVARYIYNREEYGR 71
Query: 268 FDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRV 447
FDSDVGEF+ VTE GR + WN+ KDF+EQ+RA VD VCRHNYE + R+ EP V
Sbjct: 72 FDSDVGEFQAVTELGR-SIEDWNNYKDFLEQERAAVDKVCRHNYEAELRTTLQRQVEPTV 130
Query: 448 TVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMV 627
T+ P++T+ L HHNLLVCSVT FYP ++V+WFRN QEE AGVVST LI NGDWTFQ +V
Sbjct: 131 TISPSRTEALNHHNLLVCSVTDFYPAQIKVQWFRNDQEETAGVVSTSLIRNGDWTFQILV 190
Query: 628 MLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQG 741
MLE PQ G++YTC+VEHPSL SP+TVEWR R G
Sbjct: 191 MLEITPQRGDIYTCQVEHPSLQSPITVEWRPRGPPPAG 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: 51,563,577
Number of Sequences: 39411
Number of extensions: 1520863
Number of successful extensions: 6422
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 5128
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): 6373
length of database: 17,774,539
effective HSP length: 104
effective length of database: 13,675,795
effective search space used: 4184793270
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= UTR01_0087_G10
(1233 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] 61 5e-11
Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 59 2e-10
Alignment gi|NP_998996.1| CD1 antigen [Sus scrofa] 55 3e-09
>ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa]
Length = 401
Score = 73.2 bits (178), Expect = 1e-14
Identities = 46/179 (25%), Positives = 79/179 (44%), Gaps = 5/179 (2%)
Frame = +1
Query: 193 CHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAE 372
C+ +R ++ Y+G +Y+ + D+ + V + + W ++ EQ RA
Sbjct: 122 CYVARDGRLLRGYSQFAYDGADYIVLNEDLRSWTAVGMAAQITRRKWE-EETVAEQSRAY 180
Query: 373 VDTVC---RHNYEILETFLVPRRAEPR--VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEV 537
++ C H Y + R P+ VT +P+ + L C GFYP + +
Sbjct: 181 LEVACVQSLHRYLANGKETLQRSDPPKTHVTRHPSSDNKVT----LRCWALGFYPKEISL 236
Query: 538 RWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 714
W + GQ+++ V P+GD TF+ L P + YTC V+H L P+T+ W
Sbjct: 237 TWQQEGQDQSQDVEVVETRPSGDGTFRKWAALVVPPGEEQSYTCHVQHEGLQEPLTLRW 295
>ref|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa]
Length = 356
Score = 61.2 bits (147), Expect = 5e-11
Identities = 45/168 (26%), Positives = 74/168 (44%), Gaps = 5/168 (2%)
Frame = +1
Query: 247 NGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVP 426
NG+E+++FD+ +G + R W + D + +++ + C H L L
Sbjct: 136 NGEEFMKFDTKLGTWDGEWPEARTIGSKWMQEPDAVNKEKTFLLYSCPHR---LLGHLER 192
Query: 427 RRA-----EPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGL 591
R EP A+ ++L C FYP +++R+ RNG AAG + +
Sbjct: 193 GRGNLEWKEPPSMRMKARPGTAPGFSVLTCIAFSFYPPELQLRFLRNGL--AAGSGESDI 250
Query: 592 IPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESA 735
PNGD +F L Y C V+H L P+TVE + ++S+
Sbjct: 251 GPNGDGSFHAWSSLTVKSGDEHHYCCVVQHAGLAQPLTVELESPAKSS 298
>ref|NP_999143.1| beta 2-microglobulin [Sus scrofa]
Length = 118
Score = 59.3 bits (142), Expect = 2e-10
Identities = 31/92 (33%), Positives = 49/92 (53%)
Frame = +1
Query: 439 PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 618
P+V VY N L C V+GF+P +E+ +NG++ A + L + DW+F
Sbjct: 25 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSFY 82
Query: 619 TMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 714
+V E P + + Y+CRV+H +L P V+W
Sbjct: 83 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 114
>ref|NP_998996.1| CD1 antigen [Sus scrofa]
Length = 339
Score = 55.1 bits (131), Expect = 3e-09
Identities = 28/73 (38%), Positives = 39/73 (53%)
Frame = +1
Query: 472 PLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQS 651
P H +LVC V+GFYP + V W R+ QE+ G ++PN D T+ V L+
Sbjct: 215 PSPGHLMLVCHVSGFYPKPIWVMWMRDEQEQ-PGTQQGDILPNADGTWYLRVTLDVAAGE 273
Query: 652 GEVYTCRVEHPSL 690
+CRV+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: 1,194,220
Number of Sequences: 1040
Number of extensions: 31914
Number of successful extensions: 125
Number of sequences better than 1.0e-05: 4
Number of HSP's better than 0.0 without gapping: 102
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): 120
length of database: 434,620
effective HSP length: 79
effective length of database: 352,460
effective search space used: 116664260
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= UTR01_0087_G10
(1233 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 [... 377 e-104
Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 306 3e-83
Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 291 7e-79
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 259 5e-69
Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 79 1e-14
Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 77 5e-14
Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 72 9e-13
Alignment gi|NP_032235.1| histocompatibility-2 complex class 1-like [Mus ... 71 2e-12
Alignment gi|NP_038506.1| alpha-2-glycoprotein 1, zinc [Mus musculus] 67 4e-11
Alignment gi|NP_001030080.1| hypothetical protein LOC547343 [Mus musculus] 66 7e-11
>ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus]
Length = 264
Score = 377 bits (969), Expect = e-104
Identities = 176/255 (69%), Positives = 208/255 (81%)
Frame = +1
Query: 97 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDS 276
+AA+ ++L VLSPP+AL RD+ P FL K+ECHF+NGT+RVRFL RYFYN +E +RFDS
Sbjct: 10 VAAVILLLTVLSPPVALVRDSRPWFLEYCKSECHFYNGTQRVRFLKRYFYNLEENLRFDS 69
Query: 277 DVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTVY 456
DVGEFR VTE GRPDA+ WNSQ + +++KRA VDT CRHNYEI + FLVPRR EP VTVY
Sbjct: 70 DVGEFRAVTELGRPDAENWNSQPEILDEKRAAVDTYCRHNYEIFDNFLVPRRVEPTVTVY 129
Query: 457 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 636
P KTQPL+HHNLLVCSV+ FYPG++EVRWFRNG+EE G+VSTGL+ NGDWTFQT+VMLE
Sbjct: 130 PTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQTLVMLE 189
Query: 637 TVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 816
TVPQSGEVYTC+VEHPSLT PVTVEW+A+S SAQ KM+SG+ IYF+
Sbjct: 190 TVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLSGVGGFVLGLLFLRAGLFIYFR 249
Query: 817 NQKGRPALQPTGLLS 861
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 = 306 bits (784), Expect = 3e-83
Identities = 146/252 (57%), Positives = 185/252 (73%)
Frame = +1
Query: 64 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 243
M+ L RG +AA+ + L++L+PP+ L RD P FL KAECH+FNG ERV + R+
Sbjct: 1 MVSLWLPRGLCVAAVILSLMMLTPPVILVRDPRPRFLEQLKAECHYFNGKERVWSVTRFI 60
Query: 244 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 423
YN +E+ RF+SD G+F VTE GRP +Y N+QKD ++ RA VD CR+NY++++ F++
Sbjct: 61 YNQEEFARFNSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRASVDR-CRNNYDLVDIFML 119
Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
+AEP+VTVYPAKTQPL+HHNLLVCSV FYPG +EVRWFRNG+EE GVVSTGLI N
Sbjct: 120 NLKAEPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNR 179
Query: 604 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
DWT+QT+VMLE VP+ GEVYTC+VEHPSLTSPVTVEWRARS SAQ K++SG+
Sbjct: 180 DWTYQTLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKLLSGVMGMALGLF 239
Query: 784 XXXXXXXIYFKN 819
Y +N
Sbjct: 240 ILAVGLFFYLRN 251
>ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus]
Length = 265
Score = 291 bits (746), Expect = 7e-79
Identities = 144/255 (56%), Positives = 177/255 (69%), Gaps = 1/255 (0%)
Frame = +1
Query: 97 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDS 276
++A ++L+VLS P D+ HF++ EC+F NGT+R+R++ RY YN +EYVR+DS
Sbjct: 10 LSAAVVVLMVLSSPGTEGGDSERHFVYQFMGECYFTNGTQRIRYVTRYIYNREEYVRYDS 69
Query: 277 DVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAE-PRVTV 453
DVGE R VTE GRPDA+YWNSQ + +E+ RAE+DTVCRHNYE ET RR E P V +
Sbjct: 70 DVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHTSLRRLEQPNVVI 129
Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633
++T+ L HHN LVCSVT FYP ++VRWFRNGQEE GV ST LI NGDWTFQ +VML
Sbjct: 130 SLSRTEALNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLVML 189
Query: 634 ETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 813
E P+ GEVYTC VEHPSL SP+TVEWRA+SESA KM+SGI I
Sbjct: 190 EMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLSGIGGCVLGVIFLGLGLFIRH 249
Query: 814 KNQKGRPALQPTGLL 858
++QKG P GLL
Sbjct: 250 RSQKGPRGPPPAGLL 264
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus]
Length = 271
Score = 259 bits (661), Expect = 5e-69
Identities = 124/254 (48%), Positives = 163/254 (64%)
Frame = +1
Query: 85 RGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYV 264
R W+ AL + L+ L + RD+P +F+ KA+C+F NGTE+V L R+ +N +EY+
Sbjct: 5 RAPWVVALLVNLMRLDSFMIEGRDSPENFVIQAKADCYFTNGTEKVHLLVRFIFNLEEYL 64
Query: 265 RFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPR 444
FDSD+G F +TE G PDA WN + D +E RA V+ VCR Y++ F V R P
Sbjct: 65 HFDSDLGMFVALTELGEPDADQWNKRLDLLETSRAAVNMVCRQKYKLGAPFTVERNVPPE 124
Query: 445 VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTM 624
VTVYP +T LQ HNLL+CSVTGFYPG + V+WFRNGQEE +GV+STGL+ NGDWTFQT
Sbjct: 125 VTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVRNGDWTFQTT 184
Query: 625 VMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXX 804
VMLE +P+ G++Y+C VEHP L PV+V W A+SE + K++SG
Sbjct: 185 VMLEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILSGAAVFLLGLIVFLVGVV 244
Query: 805 IYFKNQKGRPALQP 846
I+ K QK QP
Sbjct: 245 IHLKAQKASVETQP 258
>ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus]
Length = 261
Score = 78.6 bits (192), Expect = 1e-14
Identities = 63/215 (29%), Positives = 92/215 (42%), Gaps = 9/215 (4%)
Frame = +1
Query: 97 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDS 276
MAAL ++L+VLS A H ++ C + F +N D +D
Sbjct: 1 MAALWLLLLVLSLHCMGAGGFVAHV----ESTCVLNDAGTPQDFTYCVSFNKDLLACWDP 56
Query: 277 DVG-----EFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEP 441
DVG EF ++ + N Q+ + + + + H + L R P
Sbjct: 57 DVGKIVPCEFGVLSRLAEIISNILNEQESLIHRLQNGLQDCATHTQPFWDV-LTHRTRAP 115
Query: 442 RVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGVVSTGLIPNGDW 609
V V A+T P +L C V GFYP V + W +NGQ + T PNGDW
Sbjct: 116 SVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQ-PNGDW 172
Query: 610 TFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 714
T+QT+ L P G+VYTC V+H + P+ +W
Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207
>ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus]
Length = 261
Score = 76.6 bits (187), Expect = 5e-14
Identities = 62/215 (28%), Positives = 93/215 (43%), Gaps = 9/215 (4%)
Frame = +1
Query: 97 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDS 276
MAAL ++L+VLS A H ++ C + F +N D +D
Sbjct: 1 MAALWLLLLVLSLDCMGAGGFVAHV----ESTCVLDDAGTPQDFTYCVSFNKDLLACWDP 56
Query: 277 DVG-----EFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEP 441
DVG EF + + ++ N ++ +++ + + H L R P
Sbjct: 57 DVGKIVPCEFGVLYPWAENFSRILNKEESLLQRLQNGLLDCASHTQPFWNA-LTHRTRAP 115
Query: 442 RVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGVVSTGLIPNGDW 609
V V A+T P +L C V GFYP V + W +NGQ + T PNGDW
Sbjct: 116 SVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQ-PNGDW 172
Query: 610 TFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 714
T+QT+ L P G+VYTC V+H + P+ +W
Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus]
Length = 256
Score = 72.4 bits (176), Expect = 9e-13
Identities = 48/161 (29%), Positives = 70/161 (43%), Gaps = 4/161 (2%)
Frame = +1
Query: 244 YNGDEYVRFDSDVGE-FREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEIL--ET 414
++GDE D D E + EFG+ F Q + V +HN +L +
Sbjct: 53 FDGDELFYVDLDKKETVWMLPEFGQ--------LASFDPQGGLQNIAVVKHNLGVLTKRS 104
Query: 415 FLVPRRAE-PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGL 591
P E P+ TV+P L N L+C V +P + + W RN + A GV T
Sbjct: 105 NSTPATNEAPQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSF 164
Query: 592 IPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 714
N D++F + L +P ++Y C+VEH L PV W
Sbjct: 165 FVNRDYSFHKLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHW 205
>ref|NP_032235.1| histocompatibility-2 complex class 1-like [Mus musculus]
Length = 341
Score = 71.2 bits (173), Expect = 2e-12
Identities = 46/171 (26%), Positives = 77/171 (45%), Gaps = 8/171 (4%)
Frame = +1
Query: 193 CHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNS-------QKDF 351
C FL +Y Y+G +++ F+ D + + + W + QK++
Sbjct: 116 CELLEDGSTTGFL-QYAYDGQDFIIFNKDTLSWLAMDYVAHITKQAWEANLHELQYQKNW 174
Query: 352 MEQKR-AEVDTVCRHNYEILETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGH 528
+E++ A + + + LE P R +P T C GFYP
Sbjct: 175 LEEECIAWLKRFLEYGRDTLERTEHPVVRTTRKETFPGITT-------FFCRAHGFYPPE 227
Query: 529 VEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEH 681
+ + W +NG+E A V G++P+GD T+QT + + PQS +VY+C VEH
Sbjct: 228 ISMTWMKNGEEIAQEVDYGGVLPSGDGTYQTWLSVNLDPQSNDVYSCHVEH 278
>ref|NP_038506.1| alpha-2-glycoprotein 1, zinc [Mus musculus]
Length = 307
Score = 67.0 bits (162), Expect = 4e-11
Identities = 43/206 (20%), Positives = 91/206 (44%), Gaps = 5/206 (2%)
Frame = +1
Query: 112 MMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEF 291
+ LV L + +DT F G C N RY Y+G++++ F+ ++ +
Sbjct: 91 IFLVTLKDIMDYYKDTTGSHTFQGMFGCEITNNRSSGAVW-RYAYDGEDFIEFNKEIPAW 149
Query: 292 REVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRA-----EPRVTVY 456
+ W ++K ++++ +A ++ C E+L+ +L R+ +P
Sbjct: 150 IPLDPAAANTKLKWEAEKVYVQRAKAYLEEECP---EMLKRYLNYSRSHLDRIDPPTVTI 206
Query: 457 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 636
++ P + + C GFYP + + W ++ A G+ PNG+ T+ + +E
Sbjct: 207 TSRVIP-GGNRIFKCLAYGFYPQRISLHW-NKANKKLAFEPERGVFPNGNGTYLSWAEVE 264
Query: 637 TVPQSGEVYTCRVEHPSLTSPVTVEW 714
PQ + + C ++H + ++V+W
Sbjct: 265 VSPQDIDPFFCLIDHRGFSQSLSVQW 290
>ref|NP_001030080.1| hypothetical protein LOC547343 [Mus musculus]
Length = 362
Score = 66.2 bits (160), Expect = 7e-11
Identities = 46/170 (27%), Positives = 70/170 (41%), Gaps = 5/170 (2%)
Frame = +1
Query: 220 VRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVC---- 387
+R +Y Y+G +Y+ + D+ + + + W Q E+KRA ++ C
Sbjct: 134 LRGYQQYAYDGCDYIALNEDLKTWTAADTAAQITRRKWE-QAGAAERKRAYLEGTCVEWL 192
Query: 388 -RHNYEILETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEE 564
RH ET L + VT +P + L C GFYP + + W NG+E
Sbjct: 193 LRHLKNGNETLLRTDSPKAHVTHHPRSKGEVT----LRCWALGFYPADITLTWQLNGEEL 248
Query: 565 AAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 714
+ P GD TFQ + + YTC V H L P+T+ W
Sbjct: 249 TQDMELVETRPAGDGTFQKWAAVVVPLGKEQNYTCHVHHEGLPEPLTLRW 298
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: 60,932,025
Number of Sequences: 45328
Number of extensions: 1730997
Number of successful extensions: 7005
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 5659
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): 6947
length of database: 21,768,885
effective HSP length: 106
effective length of database: 16,964,117
effective search space used: 5157091568
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)