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= SPL01_0024_D06
(1421 letters)
Database: RefSeqBP
33,508 sequences; 16,112,626 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001035571.1| major histocompatibility complex, class II, ... 386 e-107
Alignment gi|XP_582099.2| PREDICTED: similar to major histocompatibility ... 75 1e-13
Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 75 1e-13
Alignment gi|NP_001012698.2| major histocompatibility complex, class II, ... 72 8e-13
Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 72 1e-12
Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 70 4e-12
Alignment gi|XP_590228.2| PREDICTED: similar to RT1-149 protein [Bos taurus] 68 2e-11
Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 68 2e-11
Alignment gi|NP_001012695.1| major histocompatibility complex, class II, ... 66 8e-11
Alignment gi|XP_878034.1| PREDICTED: similar to HLA class I histocompatib... 65 1e-10
>ref|NP_001035571.1| major histocompatibility complex, class II, DM beta-chain, expressed
[Bos taurus]
Length = 262
Score = 386 bits (991), Expect = e-107
Identities = 177/241 (73%), Positives = 197/241 (81%)
Frame = +3
Query: 288 FVAHVESTCLLDDEGTPQDFTYCISFNKDLLTCWDPQETRMVPCEFGALNALATYFSVYL 467
FVAHVESTC+LDD+G P+DF+YCISFNKDLLTCWDP + M+P EFG LN LA Y S +L
Sbjct: 21 FVAHVESTCVLDDDGDPKDFSYCISFNKDLLTCWDPLQASMIPREFGVLNGLARYLSQFL 80
Query: 468 NQQEKLLQRLSNGLQNCATHTQPFWKSLTHRTQPPSVQVAKTTPFNTRESVMLACYVWGF 647
N L+QRLSNGLQNCA HTQPFW SLTHRT+PP+VQVAKTTPFNTRESVMLACYVWGF
Sbjct: 81 NNNSYLIQRLSNGLQNCAAHTQPFWSSLTHRTRPPTVQVAKTTPFNTRESVMLACYVWGF 140
Query: 648 YPADVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLATTPSYGDTYTCVVEHIGVP 827
YPADV ITWR+NGQ VLPHG+A I QPNGDWTYQTVSHLATTPS+GDTYTCVVEHIG P
Sbjct: 141 YPADVAITWRRNGQEVLPHGRAWRIIQPNGDWTYQTVSHLATTPSFGDTYTCVVEHIGAP 200
Query: 828 EPILQDWTSGLSPVQTVKISVSVATXXXXXXXXXXXXXXCQRSVAPGYIFLPGTTYPEGQ 1007
E ILQDWT GL P QTVK+SV++ T +R+ + GYIFLPG+TYPEGQ
Sbjct: 201 ELILQDWTPGLLPAQTVKVSVALVTLVLGLIIFVFGLHSWRRATSSGYIFLPGSTYPEGQ 260
Query: 1008 H 1010
H
Sbjct: 261 H 261
>ref|XP_582099.2| PREDICTED: similar to major histocompatibility complex, class II,
DR beta 5 precursor [Bos taurus]
Length = 255
Score = 75.5 bits (184), Expect = 1e-13
Identities = 50/149 (33%), Positives = 71/149 (47%), Gaps = 6/149 (4%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQN-CATHTQPFWKSLTHRTQPPSVQV--AK 590
EF AL L + Y NQQ+ ++++ + C ++ Q L R P+V V AK
Sbjct: 64 EFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVYPAK 123
Query: 591 TTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQ---PNGDWTYQTVS 761
T P +L C V GFYP + + W N +A +I+ NGDWT+QT+
Sbjct: 124 TQPLQHHN--LLVCSVNGFYPGHIEVRWFWNSH----EEEAGVISTGLIQNGDWTFQTMV 177
Query: 762 HLATTPSYGDTYTCVVEHIGVPEPILQDW 848
L T P G+ YTC VEH P+ +W
Sbjct: 178 MLETVPQSGEVYTCQVEHPSRTSPLTVEW 206
>ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus]
Length = 261
Score = 75.1 bits (183), Expect = 1e-13
Identities = 47/162 (29%), Positives = 76/162 (46%), Gaps = 6/162 (3%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFW--KSLTHRTQPP-SVQVAK 590
E+ A+ L + Y N Q+ +L++ L H SL + +P ++ +++
Sbjct: 78 EYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEVITSLQRQVEPTVTISLSR 137
Query: 591 TTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQP---NGDWTYQTVS 761
T N +L C V FYP + + W +NG+ A +++ P NGDWT+Q +
Sbjct: 138 TEALNHHN--LLVCSVTDFYPGQIKVRWFQNGK----EETAGIVSTPLIRNGDWTFQILV 191
Query: 762 HLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKIS 887
L TP GD YTC VEH + PI +W + Q+ +S
Sbjct: 192 MLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKMLS 233
>ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus]
Length = 266
Score = 72.4 bits (176), Expect = 8e-13
Identities = 51/162 (31%), Positives = 75/162 (46%), Gaps = 6/162 (3%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFWKSLT-HRTQPPSVQV--AK 590
EF A+ L + + N Q+ L++ + H +S T R P+V V AK
Sbjct: 75 EFRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTVQRRVEPTVTVYPAK 134
Query: 591 TTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQ---PNGDWTYQTVS 761
T P +L C V GFYP + + W +NG +A +I+ NGDWT+QT+
Sbjct: 135 TQPLQHHN--LLVCSVNGFYPGHIEVRWFRNGH----EEEAGVISTGLIQNGDWTFQTMV 188
Query: 762 HLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKIS 887
L T P G+ YTC V+H PI +W + Q+ +S
Sbjct: 189 MLETVPQSGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMS 230
>ref|NP_001013618.1| major histocompatibility complex, class II, DO beta [Bos taurus]
Length = 271
Score = 72.0 bits (175), Expect = 1e-12
Identities = 36/97 (37%), Positives = 53/97 (54%)
Frame = +3
Query: 558 RTQPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNG 737
R QP + TP +++L C V GFYP D+ +TW +NGQ + + + NG
Sbjct: 120 RVQPEVTVYPEKTPALQHRNLLL-CLVTGFYPGDIKVTWFRNGQEQREGIMSTGLIR-NG 177
Query: 738 DWTYQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDW 848
DWT+Q LA TP G+ YTC+V+H + P+ +W
Sbjct: 178 DWTFQMTVMLAMTPELGEVYTCLVDHPSLLSPVSVEW 214
>ref|NP_001029840.2| MHC class II antigen [Bos taurus]
Length = 261
Score = 70.1 bits (170), Expect = 4e-12
Identities = 46/161 (28%), Positives = 73/161 (45%), Gaps = 6/161 (3%)
Frame = +3
Query: 423 FGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQP--FWKSLTHRTQPP-SVQVAKT 593
+ AL L + Y N Q+ L++ H SL R +P ++ ++T
Sbjct: 79 YRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAELITSLQRRVEPTVTISPSRT 138
Query: 594 TPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQP---NGDWTYQTVSH 764
N +L C V FYP+ + + W +N + A +++ P NGDWT+Q +
Sbjct: 139 EALNHHN--LLVCSVTDFYPSQIKVRWFRNDR----EETAGVVSTPLIRNGDWTFQILVM 192
Query: 765 LATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKIS 887
L TP GD YTC VEH + PI+ +W + Q+ +S
Sbjct: 193 LEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLS 233
>ref|XP_590228.2| PREDICTED: similar to RT1-149 protein [Bos taurus]
Length = 311
Score = 67.8 bits (164), Expect = 2e-11
Identities = 53/184 (28%), Positives = 80/184 (43%), Gaps = 16/184 (8%)
Frame = +3
Query: 345 FTYCISFNKDLLTCW---------DPQETRMVPCEFGALNALATYFSVYLNQQEKLLQRL 497
FTY +D T W D M P ++ A +A Y ++R
Sbjct: 84 FTYGCELLEDGRTTWHWQYGYDGEDYLSLHMDPLQYTAATFVAQYTKQKWEAGGNFIERD 143
Query: 498 SNGLQN-CATHTQPFWKSLT------HRTQPPSVQVAKTTPFNTRESVMLACYVWGFYPA 656
N L+ C W+ LT +RT+PP + + RE V L C+ GFYPA
Sbjct: 144 KNYLEKECILW---LWRYLTFGGESLNRTEPPKTHMTHHR-ISDRE-VTLRCWALGFYPA 198
Query: 657 DVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLATTPSYGDTYTCVVEHIGVPEPI 836
+ +TW++NG+ + + T+P+GD T+Q + L YTC V+H G+ EP+
Sbjct: 199 KISLTWQRNGEDQTQDMEL-VETRPSGDGTFQKWAALVVPSGEEQKYTCRVQHEGLQEPL 257
Query: 837 LQDW 848
W
Sbjct: 258 TLRW 261
>ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus]
Length = 259
Score = 67.8 bits (164), Expect = 2e-11
Identities = 46/153 (30%), Positives = 62/153 (40%), Gaps = 1/153 (0%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFWKSLT-HRTQPPSVQVAKTT 596
EF A+ L + N Q+ LL + H T R P+V V+ +
Sbjct: 76 EFVAVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYKETAGFTVQRRVEPTVTVSPAS 135
Query: 597 PFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLATT 776
+L C V FYP V + W +N Q +TQ NGDWTYQ L T
Sbjct: 136 TEALNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGFTPLTQ-NGDWTYQIHVMLETV 194
Query: 777 PSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQT 875
P GD Y C V+H + PI +W + Q+
Sbjct: 195 PQLGDVYVCHVDHPSLQSPITVEWRAQSESAQS 227
>ref|NP_001012695.1| major histocompatibility complex, class II, DR alpha [Bos taurus]
Length = 253
Score = 65.9 bits (159), Expect = 8e-11
Identities = 31/94 (32%), Positives = 48/94 (51%)
Frame = +3
Query: 567 PPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDWT 746
PP V + P E L C++ F P + +TW +NG+PV G + + P D
Sbjct: 110 PPEVTLLPNKPVELGEPNTLICFIDKFSPPVISVTWLRNGKPVTD-GVSQTVFLPRNDHL 168
Query: 747 YQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDW 848
++ +L P+ D Y C VEH+G+ EP+L+ W
Sbjct: 169 FRKFHYLPFLPTTEDVYDCKVEHLGLNEPLLKHW 202
>ref|XP_878034.1| PREDICTED: similar to HLA class I histocompatibility antigen, B-14
alpha chain precursor (MHC class I antigen B*14) isoform
4 [Bos taurus]
Length = 324
Score = 65.5 bits (158), Expect = 1e-10
Identities = 36/100 (36%), Positives = 54/100 (54%)
Frame = +3
Query: 558 RTQPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNG 737
R PP VA P + RE V L C+ GFYP ++ +TW++NG+ + + + T+P+G
Sbjct: 202 RADPPKAHVAHH-PSSERE-VTLRCWALGFYPEEISLTWQRNGEDQIQDMEL-VETRPSG 258
Query: 738 DWTYQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDWTSG 857
D T+Q + LA YTC V+H G+ P+ W G
Sbjct: 259 DGTFQKWAALAVPSGEEQRYTCRVQHEGLQGPLTLRWGKG 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: 57,524,206
Number of Sequences: 33508
Number of extensions: 1770938
Number of successful extensions: 6440
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 5007
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): 6381
length of database: 16,112,626
effective HSP length: 105
effective length of database: 12,594,286
effective search space used: 4634697248
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= SPL01_0024_D06
(1421 letters)
Database: RefSeqCP
33,732 sequences; 19,266,565 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 386 e-107
Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 75 2e-13
Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 74 3e-13
Alignment gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami... 73 8e-13
Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 72 1e-12
Alignment gi|NP_001014400.1| MHC class I DLA-64 [Canis familiaris] 71 3e-12
Alignment gi|NP_001014767.1| MHC class I DLA-88 [Canis familiaris] 70 7e-12
Alignment gi|NP_001014401.1| MHC class I DLA-12 [Canis familiaris] 69 1e-11
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] 60 5e-09
>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 = 386 bits (992), Expect = e-107
Identities = 177/243 (72%), Positives = 200/243 (82%)
Frame = +3
Query: 288 FVAHVESTCLLDDEGTPQDFTYCISFNKDLLTCWDPQETRMVPCEFGALNALATYFSVYL 467
F+AHVES+CLLDD+GTP+DFTYC+SFNKDLLTCWDP E +MVP EFG LN LA Y S YL
Sbjct: 21 FIAHVESSCLLDDDGTPKDFTYCVSFNKDLLTCWDPDEAKMVPYEFGTLNVLANYLSDYL 80
Query: 468 NQQEKLLQRLSNGLQNCATHTQPFWKSLTHRTQPPSVQVAKTTPFNTRESVMLACYVWGF 647
NQQE L QRLSNGLQ+CATHTQ FW SLTHRT+PP+VQVAK+TPFNT+ESVMLACYVWGF
Sbjct: 81 NQQEYLHQRLSNGLQDCATHTQSFWGSLTHRTRPPTVQVAKSTPFNTKESVMLACYVWGF 140
Query: 648 YPADVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLATTPSYGDTYTCVVEHIGVP 827
YPADV I+WRKNGQPV H A + QPNGDWTYQTVSHLATTPSY DTYTCVVEHIG P
Sbjct: 141 YPADVTISWRKNGQPVPSHSSALNMAQPNGDWTYQTVSHLATTPSYEDTYTCVVEHIGAP 200
Query: 828 EPILQDWTSGLSPVQTVKISVSVATXXXXXXXXXXXXXXCQRSVAPGYIFLPGTTYPEGQ 1007
EP+ +DWT GLSP+QTVK+SVS T +R+ + GY+FLPGT+YPEGQ
Sbjct: 201 EPVCEDWTPGLSPMQTVKVSVSGVTLGLGFIIFSLGLLSWRRAGSSGYVFLPGTSYPEGQ 260
Query: 1008 HIS 1016
H+S
Sbjct: 261 HVS 263
>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 = 74.7 bits (182), Expect = 2e-13
Identities = 48/149 (32%), Positives = 67/149 (44%), Gaps = 6/149 (4%)
Frame = +3
Query: 423 FGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFWKSLT--HRTQPPSVQVAKTT 596
F AL L + N Q +L+R + H T + QP + T
Sbjct: 73 FVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTVYPERT 132
Query: 597 PFNTRESVMLACYVWGFYPADVIITWRKNGQP----VLPHGKAHMITQPNGDWTYQTVSH 764
P +++L C V GFYP D+ I W +NGQ V+ G NGDWT+QT+
Sbjct: 133 PSMQHHNLLL-CSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIR-----NGDWTFQTMVM 186
Query: 765 LATTPSYGDTYTCVVEHIGVPEPILQDWT 851
L TP GD YTC+V H + P+ +W+
Sbjct: 187 LEMTPELGDVYTCLVNHPSLLSPVSVEWS 215
>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 = 74.3 bits (181), Expect = 3e-13
Identities = 48/148 (32%), Positives = 66/148 (44%), Gaps = 6/148 (4%)
Frame = +3
Query: 423 FGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFWKSLT--HRTQPPSVQVAKTT 596
F AL L + N Q +L+R + H T + QP + T
Sbjct: 73 FVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTVYPERT 132
Query: 597 PFNTRESVMLACYVWGFYPADVIITWRKNGQP----VLPHGKAHMITQPNGDWTYQTVSH 764
P +++L C V GFYP D+ I W +NGQ V+ G NGDWT+QT+
Sbjct: 133 PSMQHHNLLL-CSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIR-----NGDWTFQTMVM 186
Query: 765 LATTPSYGDTYTCVVEHIGVPEPILQDW 848
L TP GD YTC+V H + P+ +W
Sbjct: 187 LEMTPELGDVYTCLVNHPSLLSPVSVEW 214
>ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris]
Length = 266
Score = 72.8 bits (177), Expect = 8e-13
Identities = 46/157 (29%), Positives = 70/157 (44%), Gaps = 1/157 (0%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFWKSLT-HRTQPPSVQVAKTT 596
EF A+ L + N Q+++L++ + H +S T R P+V V T
Sbjct: 75 EFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYGVIESFTVQRRVEPTVTVYPTK 134
Query: 597 PFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLATT 776
+ +L C V GFYP + + W +NGQ G NGDWT+Q + L
Sbjct: 135 TQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEE-EAGVVSTGLIRNGDWTFQILVMLEIV 193
Query: 777 PSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKIS 887
P G+ YTC VEH + P+ +W + Q+ +S
Sbjct: 194 PQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLS 230
>ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris]
Length = 269
Score = 72.4 bits (176), Expect = 1e-12
Identities = 49/162 (30%), Positives = 74/162 (45%), Gaps = 6/162 (3%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHT--QPFWKSLTHRTQPP-SVQVAK 590
EF A+ L + Y N+Q+ + R+ L H + +L R +P ++ +K
Sbjct: 78 EFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREELTTLQRRVEPTVTIFPSK 137
Query: 591 TTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQP---NGDWTYQTVS 761
T N +L C V FYP + + W +N Q A +++ P NGDWT+Q +
Sbjct: 138 TEVLNHHN--LLVCSVTDFYPGQIKVRWFRNDQ----EQTAGVVSTPLIRNGDWTFQILV 191
Query: 762 HLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKIS 887
L TP GD YTC VEH + PI W + Q+ +S
Sbjct: 192 MLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLS 233
>ref|NP_001014400.1| MHC class I DLA-64 [Canis familiaris]
Length = 361
Score = 70.9 bits (172), Expect = 3e-12
Identities = 48/154 (31%), Positives = 77/154 (50%), Gaps = 2/154 (1%)
Frame = +3
Query: 444 ATYFSVYLNQQ--EKLLQRLSNGLQNCATHTQPFWKSLTHRTQPPSVQVAKTTPFNTRES 617
A Y+ VYL + + LL+ L G K T PP + + + P + E
Sbjct: 177 AQYYRVYLQGECVQSLLKYLERG------------KETLQLTDPPKIYLTRH-PISDHE- 222
Query: 618 VMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLATTPSYGDTY 797
V L C+ GFYPA++ +TW+++G+ + + T+P GD T+Q + + Y
Sbjct: 223 VTLRCWALGFYPAEITLTWQRDGEDQTQDTEV-VDTRPAGDGTFQKWAAVVVPSGQEQRY 281
Query: 798 TCVVEHIGVPEPILQDWTSGLSPVQTVKISVSVA 899
TC V+H G+ EP+ + W SP+ T+ I VS+A
Sbjct: 282 TCHVQHEGLAEPVTRRWEP--SPLSTIVI-VSIA 312
>ref|NP_001014767.1| MHC class I DLA-88 [Canis familiaris]
Length = 361
Score = 69.7 bits (169), Expect = 7e-12
Identities = 40/114 (35%), Positives = 65/114 (57%)
Frame = +3
Query: 558 RTQPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNG 737
R +PPS +V + P + E V L C+ GFYPA++ +TW+++G+ + + T+P G
Sbjct: 205 RAEPPSTRVTRH-PISDHE-VTLRCWALGFYPAEITLTWQRDGEDQTQDTEV-VDTRPAG 261
Query: 738 DWTYQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKISVSVA 899
D T+Q + + YTC V+H G+ EP+ + W SP+ T+ I VS+A
Sbjct: 262 DGTFQKWAAVVVPSGQEQRYTCHVQHEGLAEPVTRRWEP--SPLSTIVI-VSIA 312
>ref|NP_001014401.1| MHC class I DLA-12 [Canis familiaris]
Length = 358
Score = 68.9 bits (167), Expect = 1e-11
Identities = 40/114 (35%), Positives = 65/114 (57%)
Frame = +3
Query: 558 RTQPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNG 737
R +PPS +V + P + E V L C+ GFYPA++ +TW+++G+ + + T+P G
Sbjct: 202 RAEPPSTRVTRH-PVSDHE-VTLRCWALGFYPAEITLTWQRDGEDQTQDTEV-VDTRPAG 258
Query: 738 DWTYQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKISVSVA 899
D T+Q + + YTC V+H G+ EP+ + W SP+ T+ I VS+A
Sbjct: 259 DGTFQKWAAVVVPSGQEQRYTCHVQHEGLVEPVTRRWEP--SPLSTIVI-VSIA 309
>ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris]
Length = 254
Score = 68.9 bits (167), Expect = 1e-11
Identities = 35/94 (37%), Positives = 48/94 (51%)
Frame = +3
Query: 567 PPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDWT 746
PP V V TP E +L C++ F P + +TW +NG PV G + I P D
Sbjct: 111 PPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTT-GVSETIFLPREDHL 169
Query: 747 YQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDW 848
++ +L PS D Y C VEH G+ EP+L+ W
Sbjct: 170 FRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHW 203
>ref|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris]
Length = 381
Score = 60.1 bits (144), Expect = 5e-09
Identities = 35/114 (30%), Positives = 56/114 (49%)
Frame = +3
Query: 558 RTQPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNG 737
R PP V + P + E V L C+ GFYPA++ +TW+++G+ + + T+P G
Sbjct: 211 RADPPKTSVTRR-PISEHE-VTLKCWALGFYPAEITLTWQRDGEDQTQDTEL-VETRPGG 267
Query: 738 DWTYQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKISVSVA 899
D T+Q + + YTC + H +P+PI W P T+ I +A
Sbjct: 268 DGTFQKWAAVVVPSGEEQRYTCHILHKSLPKPITLRWEP--PPQSTIPIVSIIA 319
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: 67,286,054
Number of Sequences: 33732
Number of extensions: 2066704
Number of successful extensions: 7427
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 5746
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): 7396
length of database: 19,266,565
effective HSP length: 107
effective length of database: 15,657,241
effective search space used: 5730550206
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= SPL01_0024_D06
(1421 letters)
Database: RefSeqHP
39,411 sequences; 17,774,539 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_002109.1| major histocompatibility complex, class II, DM ... 377 e-104
Alignment gi|NP_002115.1| major histocompatibility complex, class II, DR ... 82 1e-15
Alignment gi|XP_949921.1| PREDICTED: similar to HLA class II histocompati... 80 3e-15
Alignment gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati... 79 7e-15
Alignment gi|XP_949915.1| PREDICTED: similar to HLA class II histocompati... 79 7e-15
Alignment gi|NP_068818.4| major histocompatibility complex, class II, DR ... 79 7e-15
Alignment gi|NP_072049.2| major histocompatibility complex, class II, DR ... 79 7e-15
Alignment gi|NP_002114.2| major histocompatibility complex, class II, DQ ... 78 2e-14
Alignment gi|NP_002116.2| major histocompatibility complex, class II, DR ... 76 6e-14
Alignment gi|NP_002111.1| major histocompatibility complex, class II, DO ... 74 2e-13
>ref|NP_002109.1| major histocompatibility complex, class II, DM beta precursor [Homo
sapiens]
Length = 263
Score = 377 bits (969), Expect = e-104
Identities = 174/243 (71%), Positives = 195/243 (80%)
Frame = +3
Query: 288 FVAHVESTCLLDDEGTPQDFTYCISFNKDLLTCWDPQETRMVPCEFGALNALATYFSVYL 467
FVAHVESTCLLDD GTP+DFTYCISFNKDLLTCWDP+E +M PCEFG LN+LA S +L
Sbjct: 21 FVAHVESTCLLDDAGTPKDFTYCISFNKDLLTCWDPEENKMAPCEFGVLNSLANVLSQHL 80
Query: 468 NQQEKLLQRLSNGLQNCATHTQPFWKSLTHRTQPPSVQVAKTTPFNTRESVMLACYVWGF 647
NQ++ L+QRL NGLQNCATHTQPFW SLT+RT+PPSVQVAKTTPFNTRE VMLACYVWGF
Sbjct: 81 NQKDTLMQRLRNGLQNCATHTQPFWGSLTNRTRPPSVQVAKTTPFNTREPVMLACYVWGF 140
Query: 648 YPADVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLATTPSYGDTYTCVVEHIGVP 827
YPA+V ITWRKNG+ V+PH AH QPNGDWTYQT+SHLA TPSYGDTYTCVVEHIG P
Sbjct: 141 YPAEVTITWRKNGKLVMPHSSAHKTAQPNGDWTYQTLSHLALTPSYGDTYTCVVEHIGAP 200
Query: 828 EPILQDWTSGLSPVQTVKISVSVATXXXXXXXXXXXXXXCQRSVAPGYIFLPGTTYPEGQ 1007
EPIL+DWT GLSP+QT+K+SVS T +R+ Y LPG+ Y EG
Sbjct: 201 EPILRDWTPGLSPMQTLKVSVSAVTLGLGLIIFSLGVISWRRAGHSSYTPLPGSNYSEGW 260
Query: 1008 HIS 1016
HIS
Sbjct: 261 HIS 263
>ref|NP_002115.1| major histocompatibility complex, class II, DR beta 1 precursor
[Homo sapiens]
Length = 266
Score = 82.0 bits (201), Expect = 1e-15
Identities = 52/162 (32%), Positives = 78/162 (48%), Gaps = 6/162 (3%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFWKSLT--HRTQPP-SVQVAK 590
E+ A+ L + Y N Q+ LL++ + H +S T R +P +V +K
Sbjct: 75 EYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTVQRRVEPKVTVYPSK 134
Query: 591 TTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQ---PNGDWTYQTVS 761
T P +L C V GFYP + + W +NGQ KA +++ NGDWT+QT+
Sbjct: 135 TQPLQHHN--LLVCSVSGFYPGSIEVRWFRNGQ----EEKAGVVSTGLIQNGDWTFQTLV 188
Query: 762 HLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKIS 887
L T P G+ YTC VEH V P+ +W + Q+ +S
Sbjct: 189 MLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLS 230
>ref|XP_949921.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DRB1-9 beta chain precursor (MHC class I antigen DRB1*9)
(DR-9) (DR9) isoform 3 [Homo sapiens]
Length = 325
Score = 80.5 bits (197), Expect = 3e-15
Identities = 53/154 (34%), Positives = 73/154 (47%), Gaps = 6/154 (3%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFWKSLT-HRTQPPSVQV--AK 590
E+ A+ L + N Q+ L+R + H +S T R P V V AK
Sbjct: 75 EYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTVQRRVHPEVTVYPAK 134
Query: 591 TTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQ---PNGDWTYQTVS 761
T P +L C V GFYP + + W +NGQ KA +++ NGDWT+QT+
Sbjct: 135 TQPLQHHN--LLVCSVSGFYPGSIEVRWFRNGQ----EEKAGVVSTGLIQNGDWTFQTLV 188
Query: 762 HLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLS 863
L T P G+ YTC VEH V P+ +W+ LS
Sbjct: 189 MLETVPRSGEVYTCQVEHPSVMSPLTVEWSEQLS 222
>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 = 79.3 bits (194), Expect = 7e-15
Identities = 53/162 (32%), Positives = 75/162 (46%), Gaps = 6/162 (3%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFWKSLT-HRTQPPSVQV--AK 590
E+ A+ L + N Q+ L+R + H +S T R P V V AK
Sbjct: 75 EYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTVQRRVHPEVTVYPAK 134
Query: 591 TTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQ---PNGDWTYQTVS 761
T P +L C V GFYP + + W +NGQ KA +++ NGDWT+QT+
Sbjct: 135 TQPLQHHN--LLVCSVSGFYPGSIEVRWFRNGQ----EEKAGVVSTGLIQNGDWTFQTLV 188
Query: 762 HLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKIS 887
L T P G+ YTC VEH V P+ +W + Q+ +S
Sbjct: 189 MLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLS 230
>ref|XP_949915.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DRB1-9 beta chain precursor (MHC class I antigen DRB1*9)
(DR-9) (DR9) isoform 2 [Homo sapiens]
Length = 284
Score = 79.3 bits (194), Expect = 7e-15
Identities = 53/162 (32%), Positives = 75/162 (46%), Gaps = 6/162 (3%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFWKSLT-HRTQPPSVQV--AK 590
E+ A+ L + N Q+ L+R + H +S T R P V V AK
Sbjct: 93 EYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTVQRRVHPEVTVYPAK 152
Query: 591 TTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQ---PNGDWTYQTVS 761
T P +L C V GFYP + + W +NGQ KA +++ NGDWT+QT+
Sbjct: 153 TQPLQHHN--LLVCSVSGFYPGSIEVRWFRNGQ----EEKAGVVSTGLIQNGDWTFQTLV 206
Query: 762 HLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKIS 887
L T P G+ YTC VEH V P+ +W + Q+ +S
Sbjct: 207 MLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLS 248
>ref|NP_068818.4| major histocompatibility complex, class II, DR beta 4 precursor
[Homo sapiens]
Length = 266
Score = 79.3 bits (194), Expect = 7e-15
Identities = 52/162 (32%), Positives = 78/162 (48%), Gaps = 6/162 (3%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFWKSLT--HRTQPP-SVQVAK 590
E+ A+ L + Y N Q+ LL+R + + +S T R QP +V +K
Sbjct: 75 EYQAVTELGRPDAEYWNSQKDLLERRRAEVDTYCRYNYGVVESFTVQRRVQPKVTVYPSK 134
Query: 591 TTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQ---PNGDWTYQTVS 761
T P +L C V GFYP + + W +NGQ KA +++ NGDWT+QT+
Sbjct: 135 TQPLQHHN--LLVCSVNGFYPGSIEVRWFRNGQ----EEKAGVVSTGLIQNGDWTFQTLV 188
Query: 762 HLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKIS 887
L T P G+ YTC VEH + P+ W++ Q+ +S
Sbjct: 189 MLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLS 230
>ref|NP_072049.2| major histocompatibility complex, class II, DR beta 3 precursor
[Homo sapiens]
Length = 266
Score = 79.3 bits (194), Expect = 7e-15
Identities = 53/162 (32%), Positives = 76/162 (46%), Gaps = 6/162 (3%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFWKSLT-HRTQPPSVQV--AK 590
E+ A+ L + N Q+ LL++ + N H +S T R P V V AK
Sbjct: 75 EYRAVTELGRPVAESWNSQKDLLEQKRGRVDNYCRHNYGVGESFTVQRRVHPQVTVYPAK 134
Query: 591 TTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQ---PNGDWTYQTVS 761
T P +L C V GFYP + + W +NGQ KA +++ NGDWT+QT+
Sbjct: 135 TQPLQHHN--LLVCSVSGFYPGSIEVRWFRNGQ----EEKAGVVSTGLIQNGDWTFQTLV 188
Query: 762 HLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKIS 887
L T P G+ YTC VEH V + +W + Q+ +S
Sbjct: 189 MLETVPRSGEVYTCQVEHPSVTSALTVEWRARSESAQSKMLS 230
>ref|NP_002114.2| major histocompatibility complex, class II, DQ beta 1 precursor
[Homo sapiens]
Length = 261
Score = 78.2 bits (191), Expect = 2e-14
Identities = 48/160 (30%), Positives = 74/160 (46%), Gaps = 4/160 (2%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHT-QPFWKSLTHRTQPPSVQVAKTT 596
EF A+ L + Y N Q+ +L+R + H Q ++ R P+V ++ +
Sbjct: 78 EFRAVTLLGLPAAEYWNSQKDILERKRAAVDRVCRHNYQLELRTTLQRRVEPTVTISPSR 137
Query: 597 PFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQP---NGDWTYQTVSHL 767
+L C V FYPA + + W +N Q A +++ P NGDWT+Q + L
Sbjct: 138 TEALNHHNLLVCSVTDFYPAQIKVRWFRNDQ----EETAGVVSTPLIRNGDWTFQILVML 193
Query: 768 ATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKIS 887
TP GD YTC VEH + PI +W + Q+ +S
Sbjct: 194 EMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLS 233
>ref|NP_002116.2| major histocompatibility complex, class II, DR beta 5 precursor
[Homo sapiens]
Length = 266
Score = 76.3 bits (186), Expect = 6e-14
Identities = 48/160 (30%), Positives = 71/160 (44%), Gaps = 4/160 (2%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFWKSLT-HRTQPPSVQVAKTT 596
E+ A+ L + Y N Q+ L+ + H +S T R P V V
Sbjct: 75 EYRAVTELGRPDAEYWNSQKDFLEDRRAAVDTYCRHNYGVGESFTVQRRVEPKVTVYPAR 134
Query: 597 PFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQ---PNGDWTYQTVSHL 767
+ +L C V GFYP + + W +N Q KA +++ NGDWT+QT+ L
Sbjct: 135 TQTLQHHNLLVCSVNGFYPGSIEVRWFRNSQ----EEKAGVVSTGLIQNGDWTFQTLVML 190
Query: 768 ATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKIS 887
T P G+ YTC VEH V P+ +W + Q+ +S
Sbjct: 191 ETVPRSGEVYTCQVEHPSVTSPLTVEWRAQSESAQSKMLS 230
>ref|NP_002111.1| major histocompatibility complex, class II, DO beta precursor [Homo
sapiens]
Length = 273
Score = 74.3 bits (181), Expect = 2e-13
Identities = 56/191 (29%), Positives = 77/191 (40%), Gaps = 4/191 (2%)
Frame = +3
Query: 288 FVAHVESTCLLDDEGTPQDFTYCISFNKDLLTCWDPQETRMVPCEFGALNALATYFSVYL 467
FV ++ C + F FN + +D V AL L +
Sbjct: 33 FVIQAKADCYFTNGTEKVQFVVRFIFNLEEYVRFDSDVGMFV-----ALTKLGQPDAEQW 87
Query: 468 NQQEKLLQRLSNGLQNCATHTQPFWKSLT--HRTQPPSVQVAKTTPFNTRESVMLACYVW 641
N + LL+R + H T + QP + TP + + +L C V
Sbjct: 88 NSRLDLLERSRQAVDGVCRHNYRLGAPFTVGRKVQPEVTVYPERTPLLHQHN-LLHCSVT 146
Query: 642 GFYPADVIITWRKNGQPVLPHGKAHMITQP--NGDWTYQTVSHLATTPSYGDTYTCVVEH 815
GFYP D+ I W NGQ M T P NGDWT+QTV L TP G YTC+V+H
Sbjct: 147 GFYPGDIKIKWFLNGQE---ERAGVMSTGPIRNGDWTFQTVVMLEMTPELGHVYTCLVDH 203
Query: 816 IGVPEPILQDW 848
+ P+ +W
Sbjct: 204 SSLLSPVSVEW 214
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: 65,597,583
Number of Sequences: 39411
Number of extensions: 2093956
Number of successful extensions: 8483
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 5902
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): 8231
length of database: 17,774,539
effective HSP length: 106
effective length of database: 13,596,973
effective search space used: 4990089091
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= SPL01_0024_D06
(1421 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] 68 5e-13
Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 56 2e-09
Alignment gi|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] 49 4e-07
Alignment gi|NP_998993.1| IgG heavy chain [Sus scrofa] 49 4e-07
Alignment gi|NP_001004039.1| SLA-DM alpha chain [Sus scrofa] 45 5e-06
>ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa]
Length = 401
Score = 68.2 bits (165), Expect = 5e-13
Identities = 37/118 (31%), Positives = 59/118 (50%)
Frame = +3
Query: 543 KSLTHRTQPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMI 722
K R+ PP V + + + V L C+ GFYP ++ +TW++ GQ + +
Sbjct: 197 KETLQRSDPPKTHVTRHPSSDNK--VTLRCWALGFYPKEISLTWQQEGQDQSQDVEV-VE 253
Query: 723 TQPNGDWTYQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKISVSV 896
T+P+GD T++ + L P +YTC V+H G+ EP+ W PV V I V +
Sbjct: 254 TRPSGDGTFRKWAALVVPPGEEQSYTCHVQHEGLQEPLTLRWDPPQPPVPIVGIIVGL 311
>ref|NP_999143.1| beta 2-microglobulin [Sus scrofa]
Length = 118
Score = 55.8 bits (133), Expect = 2e-09
Identities = 29/95 (30%), Positives = 47/95 (49%)
Frame = +3
Query: 564 QPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDW 743
+PP VQV P + L CYV GF+P + I KNG+ + ++ DW
Sbjct: 23 RPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSFSK---DW 79
Query: 744 TYQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDW 848
++ + H TP+ D Y+C V+H+ + +P + W
Sbjct: 80 SFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 114
>ref|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa]
Length = 356
Score = 48.5 bits (114), Expect = 4e-07
Identities = 27/91 (29%), Positives = 44/91 (48%)
Frame = +3
Query: 564 QPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDW 743
+PPS+++ K P +L C + FYP ++ + + +NG L G PNGD
Sbjct: 201 EPPSMRM-KARPGTAPGFSVLTCIAFSFYPPELQLRFLRNG---LAAGSGESDIGPNGDG 256
Query: 744 TYQTVSHLATTPSYGDTYTCVVEHIGVPEPI 836
++ S L Y CVV+H G+ +P+
Sbjct: 257 SFHAWSSLTVKSGDEHHYCCVVQHAGLAQPL 287
>ref|NP_998993.1| IgG heavy chain [Sus scrofa]
Length = 474
Score = 48.5 bits (114), Expect = 4e-07
Identities = 30/108 (27%), Positives = 47/108 (43%), Gaps = 3/108 (2%)
Frame = +3
Query: 501 NGLQNCATHTQPFWKSLTHRTQPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRK 680
N + A T+ K++ +P + +R V + C V GFYP D+ + W+
Sbjct: 349 NNVDLPAPITRTISKAIGQSREPQVYTLPPPAEELSRSKVTVTCLVIGFYPPDIHVEWKS 408
Query: 681 NGQPVLPHGKAHMITQPNGDWTYQTVSHLATTPS---YGDTYTCVVEH 815
NGQP Q + D T+ S LA + +G+T+ C V H
Sbjct: 409 NGQPEPEGNYRTTPPQQDVDGTFFLYSKLAVDKARWDHGETFECAVMH 456
>ref|NP_001004039.1| SLA-DM alpha chain [Sus scrofa]
Length = 260
Score = 44.7 bits (104), Expect = 5e-06
Identities = 23/82 (28%), Positives = 36/82 (43%)
Frame = +3
Query: 570 PSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDWTY 749
P +V P + L C+V +P + +TW + PV G D ++
Sbjct: 127 PIAEVFTLKPLEFGKPNTLVCFVSNLFPPALTVTWEHHSAPV--EGIGPTFVSATDDLSF 184
Query: 750 QTVSHLATTPSYGDTYTCVVEH 815
Q S+L TP+ D ++CVV H
Sbjct: 185 QAFSYLNFTPTPSDLFSCVVTH 206
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: 1,540,060
Number of Sequences: 1040
Number of extensions: 46217
Number of successful extensions: 168
Number of sequences better than 1.0e-05: 5
Number of HSP's better than 0.0 without gapping: 120
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): 163
length of database: 434,620
effective HSP length: 80
effective length of database: 351,420
effective search space used: 138108060
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= SPL01_0024_D06
(1421 letters)
Database: RefSeqMP
45,328 sequences; 21,768,885 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 342 6e-94
Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 339 4e-93
Alignment gi|XP_920798.1| PREDICTED: similar to Class II histocompatibili... 149 5e-36
Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 72 1e-12
Alignment gi|NP_034512.1| histocompatibility 2, class II antigen E beta [... 72 1e-12
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 72 2e-12
Alignment gi|XP_997416.1| PREDICTED: similar to H-2 class I histocompatib... 71 2e-12
Alignment gi|NP_032233.1| histocompatibility 2, T region locus 24 [Mus mu... 70 5e-12
Alignment gi|NP_038847.1| histocompatibility 2, M region locus 3 [Mus mus... 70 5e-12
Alignment gi|XP_001002412.1| PREDICTED: similar to histocompatibility 2, ... 70 5e-12
>ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus]
Length = 261
Score = 342 bits (877), Expect = 6e-94
Identities = 160/241 (66%), Positives = 181/241 (75%)
Frame = +3
Query: 288 FVAHVESTCLLDDEGTPQDFTYCISFNKDLLTCWDPQETRMVPCEFGALNALATYFSVYL 467
FVAHVESTC+L+D GTPQDFTYC+SFNKDLL CWDP ++VPCEFG L+ LA S L
Sbjct: 21 FVAHVESTCVLNDAGTPQDFTYCVSFNKDLLACWDPDVGKIVPCEFGVLSRLAEIISNIL 80
Query: 468 NQQEKLLQRLSNGLQNCATHTQPFWKSLTHRTQPPSVQVAKTTPFNTRESVMLACYVWGF 647
N+QE L+ RL NGLQ+CATHTQPFW LTHRT+ PSV+VA+TTPFNTRE VMLACYVWGF
Sbjct: 81 NEQESLIHRLQNGLQDCATHTQPFWDVLTHRTRAPSVRVAQTTPFNTREPVMLACYVWGF 140
Query: 648 YPADVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLATTPSYGDTYTCVVEHIGVP 827
YPADV ITW KNGQ V H QPNGDWTYQTVS+LA TPSYGD YTCVV+H G
Sbjct: 141 YPADVTITWMKNGQLVPSHSNKEKTAQPNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTS 200
Query: 828 EPILQDWTSGLSPVQTVKISVSVATXXXXXXXXXXXXXXCQRSVAPGYIFLPGTTYPEGQ 1007
EPI DWT GLSP+QTVK+SVS AT ++S + Y LPG+TYPEG+
Sbjct: 201 EPIRGDWTPGLSPIQTVKVSVSAATLGLGFIIFCVGFFRWRKSHSSSYTPLPGSTYPEGR 260
Query: 1008 H 1010
H
Sbjct: 261 H 261
>ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus]
Length = 261
Score = 339 bits (870), Expect = 4e-93
Identities = 160/241 (66%), Positives = 180/241 (74%)
Frame = +3
Query: 288 FVAHVESTCLLDDEGTPQDFTYCISFNKDLLTCWDPQETRMVPCEFGALNALATYFSVYL 467
FVAHVESTC+LDD GTPQDFTYC+SFNKDLL CWDP ++VPCEFG L A FS L
Sbjct: 21 FVAHVESTCVLDDAGTPQDFTYCVSFNKDLLACWDPDVGKIVPCEFGVLYPWAENFSRIL 80
Query: 468 NQQEKLLQRLSNGLQNCATHTQPFWKSLTHRTQPPSVQVAKTTPFNTRESVMLACYVWGF 647
N++E LLQRL NGL +CA+HTQPFW +LTHRT+ PSV+VA+TTPFNTRE VMLACYVWGF
Sbjct: 81 NKEESLLQRLQNGLLDCASHTQPFWNALTHRTRAPSVRVAQTTPFNTREPVMLACYVWGF 140
Query: 648 YPADVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLATTPSYGDTYTCVVEHIGVP 827
YPADV ITW KNGQ V H QPNGDWTYQTVS+LA TPSYGD YTCVV+H G
Sbjct: 141 YPADVTITWMKNGQLVPSHSNKEKTAQPNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTS 200
Query: 828 EPILQDWTSGLSPVQTVKISVSVATXXXXXXXXXXXXXXCQRSVAPGYIFLPGTTYPEGQ 1007
EPI DWT GLSP+QTVK+SVS AT ++S + Y L G+TYPEGQ
Sbjct: 201 EPIRGDWTPGLSPIQTVKVSVSAATLGLGFIIFCVGFFRWRKSHSSSYTPLSGSTYPEGQ 260
Query: 1008 H 1010
H
Sbjct: 261 H 261
>ref|XP_920798.1| PREDICTED: similar to Class II histocompatibility antigen, M beta 1
chain precursor (H2-M beta 1 chain) [Mus musculus]
Length = 167
Score = 149 bits (377), Expect = 5e-36
Identities = 67/92 (72%), Positives = 76/92 (82%)
Frame = +3
Query: 288 FVAHVESTCLLDDEGTPQDFTYCISFNKDLLTCWDPQETRMVPCEFGALNALATYFSVYL 467
FVAHVESTC+LDD GTPQDFTYC+SFNKDLL CWDP ++VPCEFG L LA FS L
Sbjct: 21 FVAHVESTCVLDDAGTPQDFTYCVSFNKDLLACWDPIVGKIVPCEFGVLYPLAENFSRIL 80
Query: 468 NQQEKLLQRLSNGLQNCATHTQPFWKSLTHRT 563
N++E LLQRL NGL +CA+HTQPFW +LTHRT
Sbjct: 81 NKEESLLQRLQNGLPDCASHTQPFWNALTHRT 112
>ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus]
Length = 265
Score = 72.0 bits (175), Expect = 1e-12
Identities = 43/145 (29%), Positives = 65/145 (44%), Gaps = 2/145 (1%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQ--PFWKSLTHRTQPPSVQVAKT 593
E A+ L + Y N Q ++L+R L H P + R + P+V ++ +
Sbjct: 73 EHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHTSLRRLEQPNVVISLS 132
Query: 594 TPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLAT 773
L C V FYP + + W +NGQ + + + NGDWT+Q + L
Sbjct: 133 RTEALNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIR-NGDWTFQVLVMLEM 191
Query: 774 TPSYGDTYTCVVEHIGVPEPILQDW 848
TP G+ YTC VEH + PI +W
Sbjct: 192 TPRRGEVYTCHVEHPSLKSPITVEW 216
>ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus]
Length = 264
Score = 72.0 bits (175), Expect = 1e-12
Identities = 45/157 (28%), Positives = 69/157 (43%), Gaps = 1/157 (0%)
Frame = +3
Query: 420 EFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQPFWKS-LTHRTQPPSVQVAKTT 596
EF A+ L + N Q ++L + H + + L R P+V V T
Sbjct: 73 EFRAVTELGRPDAENWNSQPEILDEKRAAVDTYCRHNYEIFDNFLVPRRVEPTVTVYPTK 132
Query: 597 PFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLATT 776
+L C V FYP ++ + W +NG+ G NGDWT+QT+ L T
Sbjct: 133 TQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKT-GIVSTGLVRNGDWTFQTLVMLETV 191
Query: 777 PSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKIS 887
P G+ YTC VEH + +P+ +W + + Q +S
Sbjct: 192 PQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLS 228
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus]
Length = 271
Score = 71.6 bits (174), Expect = 2e-12
Identities = 38/98 (38%), Positives = 54/98 (55%), Gaps = 1/98 (1%)
Frame = +3
Query: 558 RTQPPSVQV-AKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPN 734
R PP V V + TP + +++L C V GFYP D+ + W +NGQ + + + N
Sbjct: 119 RNVPPEVTVYPERTPLLQQHNLLL-CSVTGFYPGDISVKWFRNGQEERSGVMSTGLVR-N 176
Query: 735 GDWTYQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDW 848
GDWT+QT L P GD Y+C+VEH G+ P+ W
Sbjct: 177 GDWTFQTTVMLEMIPELGDIYSCLVEHPGLLRPVSVAW 214
>ref|XP_997416.1| PREDICTED: similar to H-2 class I histocompatibility antigen, L-D
alpha chain precursor [Mus musculus]
Length = 375
Score = 71.2 bits (173), Expect = 2e-12
Identities = 51/176 (28%), Positives = 77/176 (43%)
Frame = +3
Query: 357 ISFNKDLLTCWDPQETRMVPCEFGALNALATYFSVYLNQQEKLLQRLSNGLQNCATHTQP 536
I+ N+DL T ++ + A Y+ Y+ + + +Q L L+
Sbjct: 145 IALNEDLKTWTAKDVAALITRRKWEQDGAAEYYKAYM--EGECVQSLRRYLE-------- 194
Query: 537 FWKSLTHRTQPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAH 716
K + RT PP V T + V L C+ GFYPAD+ +TW+ NG+ L
Sbjct: 195 LGKEMLLRTDPPKAHV--THHPRSEGDVTLRCWALGFYPADITLTWQLNGEE-LTQDMEL 251
Query: 717 MITQPNGDWTYQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKI 884
+ T+P GD T+Q + + YTC V H G+PEP+ W S V + I
Sbjct: 252 VETRPAGDGTFQKWAAVVVPLGKEQNYTCHVHHEGLPEPLTLRWEPPPSTVSNMVI 307
>ref|NP_032233.1| histocompatibility 2, T region locus 24 [Mus musculus]
Length = 388
Score = 70.1 bits (170), Expect = 5e-12
Identities = 35/97 (36%), Positives = 53/97 (54%)
Frame = +3
Query: 558 RTQPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNG 737
RT PP V T F +E+V L C+ GFYPAD+ +TW+ NG+ L + T+P+G
Sbjct: 204 RTDPPKTTV--THQFKPKENVTLRCWALGFYPADITLTWQLNGEE-LTQDTELVETRPSG 260
Query: 738 DWTYQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDW 848
D T+Q + + YTC V+H + +P++ W
Sbjct: 261 DGTFQKWAAVVVPSGEEQRYTCHVQHEALTQPLVLKW 297
>ref|NP_038847.1| histocompatibility 2, M region locus 3 [Mus musculus]
Length = 336
Score = 70.1 bits (170), Expect = 5e-12
Identities = 50/155 (32%), Positives = 71/155 (45%), Gaps = 2/155 (1%)
Frame = +3
Query: 444 ATYFSVYLNQQ--EKLLQRLSNGLQNCATHTQPFWKSLTHRTQPPSVQVAKTTPFNTRES 617
A YF Y+ + E L + L NG K + R PP VA +
Sbjct: 177 AEYFRAYVEGECLELLHRFLRNG------------KEILQRADPPKAHVAHHP--RPKGD 222
Query: 618 VMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLATTPSYGDTY 797
V L C+ GFYPAD+ +TW+K+ + L + T+P+GD T+Q + + Y
Sbjct: 223 VTLRCWALGFYPADITLTWQKDEED-LTQDMELVETRPSGDGTFQKWAAVVVPSGEEQRY 281
Query: 798 TCVVEHIGVPEPILQDWTSGLSPVQTVKISVSVAT 902
TC V H G+ EP+ W G S +V I V VA+
Sbjct: 282 TCYVHHEGLTEPLALKW--GRSSQSSVVIMVIVAS 314
>ref|XP_001002412.1| PREDICTED: similar to histocompatibility 2, T region locus 24 [Mus
musculus]
Length = 588
Score = 70.1 bits (170), Expect = 5e-12
Identities = 35/97 (36%), Positives = 53/97 (54%)
Frame = +3
Query: 558 RTQPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNG 737
RT PP V T F +E+V L C+ GFYPAD+ +TW+ NG+ L + T+P+G
Sbjct: 206 RTDPPKTTV--THQFKPKENVTLRCWALGFYPADITLTWQLNGEE-LTQDTELVETRPSG 262
Query: 738 DWTYQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDW 848
D T+Q + + YTC V+H + +P++ W
Sbjct: 263 DGTFQKWAAVVVPSGEEQRYTCHVQHEALTQPLVLKW 299
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: 76,953,859
Number of Sequences: 45328
Number of extensions: 2341424
Number of successful extensions: 8592
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 6422
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): 8469
length of database: 21,768,885
effective HSP length: 107
effective length of database: 16,918,789
effective search space used: 6192276774
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)