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_0038_H10
(1178 letters)
Database: RefSeqBP
33,508 sequences; 16,112,626 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001013619.2| histocompatibility complex, class II, DQ alp... 401 e-112
Alignment gi|NP_001012693.1| major histocompatibility complex, class II, ... 384 e-107
Alignment gi|NP_001012699.1| major histocompatibility complex, class II, ... 337 8e-93
Alignment gi|NP_001012696.1| major histocompatibility complex, class II, ... 301 7e-82
Alignment gi|XP_604082.2| PREDICTED: similar to HLA class II histocompati... 238 5e-63
Alignment gi|XP_883292.1| PREDICTED: similar to HLA class II histocompati... 236 3e-62
Alignment gi|NP_001012695.1| major histocompatibility complex, class II, ... 223 3e-58
Alignment gi|NP_776318.1| beta-2-microglobulin [Bos taurus] 73 5e-13
Alignment gi|NP_001012692.2| major histocompatibility complex, class II, ... 65 8e-11
Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 62 1e-09
>ref|NP_001013619.2| histocompatibility complex, class II, DQ alpha, type 1 [Bos taurus]
Length = 255
Score = 401 bits (1031), Expect = e-112
Identities = 190/255 (74%), Positives = 213/255 (83%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
MV R L+ GALALT +MS G EDI ADH+ +YG+++Y +YGPSGYYTHEFDGDEEFYV
Sbjct: 1 MVLNRALILGALALTTMMSPSGSEDIVADHIGTYGISIYHTYGPSGYYTHEFDGDEEFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DLEK+ETVW+LP+FSKF +FDPQGALRNIAT KHNL IV +RSN+TAA NKVPEVTVFSK
Sbjct: 61 DLEKRETVWRLPVFSKFATFDPQGALRNIATTKHNLEIVIQRSNSTAATNKVPEVTVFSK 120
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
SPV+LGQPNTLICHVD+IFPPVINITWL+NGHSVTEG SETSFL ++D+SFLKI+YLTFL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLRNGHSVTEGVSETSFLIKSDYSFLKINYLTFL 180
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 774
PSDDD YDCKVEHWGLD+PLLKHWEP+IPAPMSELTET
Sbjct: 181 PSDDDVYDCKVEHWGLDEPLLKHWEPDIPAPMSELTETVVCALGLTVGLVGIMVGTILII 240
Query: 775 QGLRSGGPSRHQGSL 819
QGLRSGGPSRHQG L
Sbjct: 241 QGLRSGGPSRHQGPL 255
>ref|NP_001012693.1| major histocompatibility complex, class II, DQ alpha [Bos taurus]
Length = 255
Score = 384 bits (986), Expect = e-107
Identities = 186/255 (72%), Positives = 205/255 (80%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
MV R L+ G LALT +MS GGEDI ADHV YG+++YQSYGPSG YTHEFDGDE+FYV
Sbjct: 1 MVLNRALILGTLALTTMMSPSGGEDIVADHVGIYGISIYQSYGPSGQYTHEFDGDEQFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DLEKKET WQLPLFS+ SFDPQ ALRNIA +K +++ +TK SN+TAA NKVPEVTVFSK
Sbjct: 61 DLEKKETAWQLPLFSRMLSFDPQLALRNIAIMKLHVDFLTKFSNSTAATNKVPEVTVFSK 120
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
SPV+LGQPNTLICHVD+IFPPVINITWL+NGHSVTEG SETSFL R+D+SFLKI YL FL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLRNGHSVTEGVSETSFLIRSDYSFLKIKYLAFL 180
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 774
PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSDDDIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCTLGLTMGLVGITVGTIFII 240
Query: 775 QGLRSGGPSRHQGSL 819
QGLRSG PSRHQG L
Sbjct: 241 QGLRSGDPSRHQGPL 255
>ref|NP_001012699.1| major histocompatibility complex, class II, DQ alpha 1 [Bos taurus]
Length = 268
Score = 337 bits (865), Expect = 8e-93
Identities = 157/204 (76%), Positives = 177/204 (86%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
MV R L+ GALALT +MS+ GGEDI ADHV SYG +YQS+GPSG YT EFDGDE FYV
Sbjct: 1 MVLNRALILGALALTTMMSSSGGEDIVADHVGSYGTEIYQSHGPSGQYTQEFDGDEMFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DL KKETVW+LP+FS+F FDPQ AL IAT KHNL+++TKRSN T +N+VPEVTVFSK
Sbjct: 61 DLGKKETVWRLPMFSQFAGFDPQAALSEIATAKHNLDVLTKRSNFTPVINEVPEVTVFSK 120
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
SPV+LGQPNTLICHVD+IFPPVINITWLKNGH+VTEG SETSFL ++DHSFLKI YLTFL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHAVTEGVSETSFLPKDDHSFLKIGYLTFL 180
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHW 666
PSD+D YDCKVEHWGLD+PLLKHW
Sbjct: 181 PSDNDIYDCKVEHWGLDEPLLKHW 204
>ref|NP_001012696.1| major histocompatibility complex, class II, DY alpha [Bos taurus]
Length = 253
Score = 301 bits (771), Expect = 7e-82
Identities = 141/214 (65%), Positives = 168/214 (78%)
Frame = +1
Query: 67 RVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEK 246
+ L+ AL L +MS GGEDI ADHV +YG NVYQ+YG SG +T EFDGDE FYVDL K
Sbjct: 3 KALILRALTLATMMSPYGGEDIVADHVGTYGTNVYQTYGASGQFTFEFDGDELFYVDLGK 62
Query: 247 KETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSKSPVI 426
KETVW+LP FS T F+ Q ALRNI K NL+I+ K S+ T A +++PEV VF KS V+
Sbjct: 63 KETVWRLPEFSNITKFEVQSALRNIVMSKRNLDILIKNSSFTPATSEIPEVAVFPKSSVV 122
Query: 427 LGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDD 606
LG PNTLIC VD+IFPPVINITW NGH V EG +ET+F ++DHSFLK SYLTFLP+++
Sbjct: 123 LGIPNTLICQVDNIFPPVINITWFYNGHFVAEGIAETTFYPKSDHSFLKFSYLTFLPTNE 182
Query: 607 DFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 708
DFYDC+VEHWGL++PL+KHWEPEIP P SELTET
Sbjct: 183 DFYDCRVEHWGLEEPLVKHWEPEIPTPTSELTET 216
>ref|XP_604082.2| PREDICTED: similar to HLA class II histocompatibility antigen, DO
alpha chain precursor (MHC class II antigen DOA) (MHC DZ
alpha) (MHC DN-alpha) isoform 1 [Bos taurus]
Length = 250
Score = 238 bits (608), Expect = 5e-63
Identities = 114/212 (53%), Positives = 146/212 (68%)
Frame = +1
Query: 73 LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKE 252
L+ G L ++S I ADH+ SYG YQSY +G +T++FDG++ F VDL+K+E
Sbjct: 7 LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66
Query: 253 TVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSKSPVILG 432
VW+LP F F FDPQ L +IA +K +L + KRSN T A N P V V KS V LG
Sbjct: 67 AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126
Query: 433 QPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDF 612
+PN LIC VD IFPPVINITWL+NGH VT+G +++SF ++ DH F K YLTF+P DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186
Query: 613 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 708
YDCKVEHWGLD+PL +HWEP++P + + T T
Sbjct: 187 YDCKVEHWGLDQPLFQHWEPQVPTALPDTTGT 218
>ref|XP_883292.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
alpha chain precursor (MHC class II antigen DOA) (MHC DZ
alpha) (MHC DN-alpha) isoform 2 [Bos taurus]
Length = 251
Score = 236 bits (602), Expect = 3e-62
Identities = 114/213 (53%), Positives = 147/213 (69%), Gaps = 1/213 (0%)
Frame = +1
Query: 73 LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKE 252
L+ G L ++S I ADH+ SYG YQSY +G +T++FDG++ F VDL+K+E
Sbjct: 7 LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66
Query: 253 TVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVN-KVPEVTVFSKSPVIL 429
VW+LP F F FDPQ L +IA +K +L + KRSN T A N P+V V KS V L
Sbjct: 67 AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNGSTPQVAVLPKSHVQL 126
Query: 430 GQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDD 609
G+PN LIC VD IFPPVINITWL+NGH VT+G +++SF ++ DH F K YLTF+P DD
Sbjct: 127 GEPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDD 186
Query: 610 FYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 708
FYDCKVEHWGLD+PL +HWEP++P + + T T
Sbjct: 187 FYDCKVEHWGLDQPLFQHWEPQVPTALPDTTGT 219
>ref|NP_001012695.1| major histocompatibility complex, class II, DR alpha [Bos taurus]
Length = 253
Score = 223 bits (567), Expect = 3e-58
Identities = 108/211 (51%), Positives = 134/211 (63%)
Frame = +1
Query: 187 SGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSN 366
S + +FDGDE F+VD+ KKETVW+LP F F SF+ QGAL N+A +K NL+I+ KRSN
Sbjct: 43 SAEFMFDFDGDEIFHVDMGKKETVWRLPEFGHFASFEAQGALANMAVMKANLDIMIKRSN 102
Query: 367 NTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFL 546
NT N PEVT+ PV LG+PNTLIC +D PPVI++TWL+NG VT+G S+T FL
Sbjct: 103 NTPNTNVPPEVTLLPNKPVELGEPNTLICFIDKFSPPVISVTWLRNGKPVTDGVSQTVFL 162
Query: 547 SRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXX 726
RNDH F K YL FLP+ +D YDCKVEH GL++PLLKHWE E PAP+ E TE
Sbjct: 163 PRNDHLFRKFHYLPFLPTTEDVYDCKVEHLGLNEPLLKHWEYEAPAPLPETTENAVCALG 222
Query: 727 XXXXXXXXXXXXXXXXQGLRSGGPSRHQGSL 819
+G+R +G L
Sbjct: 223 LIVALVGIIAGTIFIIKGVRKANTVERRGPL 253
>ref|NP_776318.1| beta-2-microglobulin [Bos taurus]
Length = 118
Score = 72.8 bits (177), Expect = 5e-13
Identities = 36/101 (35%), Positives = 57/101 (56%)
Frame = +1
Query: 376 AVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRN 555
A+ + P++ V+S+ P G+PN L C+V PP I I LKNG + S+ SF
Sbjct: 20 AIQRPPKIQVYSRHPPEDGKPNYLNCYVYGFHPPQIEIDLLKNGEKIKSEQSDLSF--SK 77
Query: 556 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEI 678
D SF +S+ F P+ D Y C+V+H L++P + W+ ++
Sbjct: 78 DWSFYLLSHAEFTPNSKDQYSCRVKHVTLEQPRIVKWDRDL 118
>ref|NP_001012692.2| major histocompatibility complex, class II, DM alpha-chain,
expressed [Bos taurus]
Length = 260
Score = 65.5 bits (158), Expect = 8e-11
Identities = 45/181 (24%), Positives = 81/181 (44%), Gaps = 3/181 (1%)
Frame = +1
Query: 172 QSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSF--DPQGALRNIATLKHNLN 345
Q + P+ + +D D+ F D + V +LP F+ + D + + + +
Sbjct: 51 QDWSPNVALSESYDEDQLFSFDFSQSIRVPRLPEFADWAHQHGDTSDIMFDKGFCRAMIE 110
Query: 346 IVTKRSNNTAAVNK-VPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTE 522
+ V++ P V VF+ P+ G+PNTL+C + ++FPP + + W ++ + E
Sbjct: 111 EIGPELEGQIPVSRGFPIVQVFTLKPLEFGKPNTLVCFISNLFPPTLTVNW-QHQSAPVE 169
Query: 523 GFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELT 702
G T + + +F SYL P+ D + C V H + W P+ P S+L
Sbjct: 170 GAGPTFVSAVDGLTFQAFSYLNVTPAPSDLFSCIVTHEIDGYTAIAFWVPQNALP-SDLL 228
Query: 703 E 705
E
Sbjct: 229 E 229
>ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus]
Length = 261
Score = 61.6 bits (148), Expect = 1e-09
Identities = 30/103 (29%), Positives = 43/103 (41%)
Frame = +1
Query: 391 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 570
P VT+ L N L+C V +P I + W +NG T G T + D +F
Sbjct: 129 PTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIRNGDWTFQ 188
Query: 571 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 699
+ L P D Y C VEH L P+ W + + S++
Sbjct: 189 ILVMLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKM 231
Database: RefSeqBP
Posted date: Aug 1, 2006 7:14 PM
Number of letters in database: 16,112,626
Number of sequences in database: 33,508
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 38,338,998
Number of Sequences: 33508
Number of extensions: 952053
Number of successful extensions: 2904
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 2622
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): 2891
length of database: 16,112,626
effective HSP length: 103
effective length of database: 12,661,302
effective search space used: 3659116278
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_0038_H10
(1178 letters)
Database: RefSeqCP
33,732 sequences; 19,266,565 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001011726.1| MHC class II DLA DQalpha chain [Canis famili... 387 e-107
Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 230 2e-60
Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 228 7e-60
Alignment gi|XP_532104.2| PREDICTED: similar to HLA class II histocompati... 100 5e-21
Alignment gi|XP_538853.2| PREDICTED: similar to major histocompatibility ... 72 8e-13
Alignment gi|XP_861572.1| PREDICTED: similar to major histocompatibility ... 67 4e-11
Alignment gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec... 66 6e-11
Alignment gi|XP_850148.1| PREDICTED: similar to beta-2-microglobulin prec... 66 6e-11
Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 65 1e-10
Alignment gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami... 65 1e-10
>ref|NP_001011726.1| MHC class II DLA DQalpha chain [Canis familiaris]
Length = 255
Score = 387 bits (994), Expect = e-107
Identities = 186/255 (72%), Positives = 206/255 (80%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
M+ RVL+ G L LT +MS GGE+I ADHVA+YG+NVYQSYGPSG YTHEFDGDEEFYV
Sbjct: 1 MILNRVLILGTLILTIMMSPSGGEEIVADHVANYGINVYQSYGPSGQYTHEFDGDEEFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DLEKKETVW+LP+FS F SFDPQGALRN+A +K NLNI+TKRSN TAA N+VPEVTVFSK
Sbjct: 61 DLEKKETVWRLPVFSTFRSFDPQGALRNLAIIKQNLNIMTKRSNQTAATNEVPEVTVFSK 120
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
SPV+LGQPNTLIC VD+IFPPVIN+TWLKN HSVTEG SETSF ++ DHSF KISYLTFL
Sbjct: 121 SPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFSKISYLTFL 180
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 774
PS +D YDCKVEHWGLD+PLLKHWEPE+P PMSELTET
Sbjct: 181 PSAEDIYDCKVEHWGLDEPLLKHWEPEVPTPMSELTETVVCALGLAVGLVGIVMGTVFII 240
Query: 775 QGLRSGGPSRHQGSL 819
QGLRSGG SRHQG L
Sbjct: 241 QGLRSGGTSRHQGPL 255
>ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris]
Length = 254
Score = 230 bits (586), Expect = 2e-60
Identities = 110/179 (61%), Positives = 130/179 (72%)
Frame = +1
Query: 169 YQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNI 348
Y + PSG + +FDGDE F+VD+EKKETVW+L F +F SF+ QGAL NIA K NL+
Sbjct: 38 YLTPDPSGEFMFDFDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDT 97
Query: 349 VTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGF 528
+ KRSN+T N PEVTV S +PV LG+PN LIC +D PPVIN+TWL+NG+ VT G
Sbjct: 98 MIKRSNHTPNTNVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGV 157
Query: 529 SETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 705
SET FL R DH F K YL FLPS +D YDCKVEHWGLD+PLLKHWE E P P+ E TE
Sbjct: 158 SETIFLPREDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHWEFEPPTPLPETTE 216
>ref|XP_850803.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
alpha chain precursor (MHC class II antigen DOA) (MHC DZ
alpha) (MHC DN-alpha) isoform 11 [Canis familiaris]
Length = 227
Score = 228 bits (582), Expect = 7e-60
Identities = 105/195 (53%), Positives = 138/195 (70%), Gaps = 7/195 (3%)
Frame = +1
Query: 145 VASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIA 324
+ SYG YQSYG SG + HEFDG++ F V+L+K++ VW+LP F FDPQ L +IA
Sbjct: 1 MGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLASIA 60
Query: 325 TLKHNLNIVTKRSNNTAAVNKV-------PEVTVFSKSPVILGQPNTLICHVDSIFPPVI 483
+K +L+++ +RSN T A+N P V V K V LGQPN LIC VD+IFPPVI
Sbjct: 61 VIKAHLDVLVERSNRTRAINGTHLSSPLPPRVAVLPKFRVELGQPNVLICIVDNIFPPVI 120
Query: 484 NITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKH 663
NITWL+NG ++EG ++TSF S+ DH F K YLTF+PS +D YDCKVEHWGL++PLL+H
Sbjct: 121 NITWLRNGQIISEGVAQTSFYSQPDHLFRKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRH 180
Query: 664 WEPEIPAPMSELTET 708
WEP++P P+ + ET
Sbjct: 181 WEPQVPIPVPDTIET 195
>ref|XP_532104.2| PREDICTED: similar to HLA class II histocompatibility antigen, DO
alpha chain precursor (MHC class II antigen DOA) (MHC DZ
alpha) (MHC DN-alpha) isoform 10 [Canis familiaris]
Length = 142
Score = 99.8 bits (247), Expect = 5e-21
Identities = 49/108 (45%), Positives = 70/108 (64%)
Frame = +1
Query: 130 IAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGA 309
I ADH+ SYG YQSYG SG + HEFDG++ F V+L+K++ VW+LP F FDPQ
Sbjct: 12 IEADHMGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNG 71
Query: 310 LRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLIC 453
L +IA +K +L+++ +RSN T A+N+ P+V + + TLIC
Sbjct: 72 LASIAVIKAHLDVLVERSNRTRAINE-PQVPIPVPDTI-----ETLIC 113
>ref|XP_538853.2| PREDICTED: similar to major histocompatibility complex, class II,
DM alpha precursor isoform 1 [Canis familiaris]
Length = 265
Score = 72.4 bits (176), Expect = 8e-13
Identities = 50/181 (27%), Positives = 84/181 (46%), Gaps = 3/181 (1%)
Frame = +1
Query: 172 QSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFT--SFDPQGALRNIATLKHNLN 345
Q++ PS +DGD+ F + + V +LP F+ + S D + A + +
Sbjct: 57 QNWSPSIGLLEAYDGDQLFSFNFSQNTRVPRLPEFADWAQKSGDMPTISFDKAFCQAMIE 116
Query: 346 IVTKRSNNTAAVNK-VPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTE 522
+ + V++ P V VF+ P+ G+PN L+C + ++FPP + + W + V E
Sbjct: 117 EIGPKLEGQIPVSRGFPMVDVFTLKPLEFGKPNMLVCFISNLFPPTLTVNWWHHLDPV-E 175
Query: 523 GFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELT 702
G T + + SF SYL F P+ D + C V H + + +W P P S+L
Sbjct: 176 GIGPTFVSAVDGFSFQAFSYLNFTPAPSDLFSCVVTHEIDNYTAIAYWVPHDALP-SDLL 234
Query: 703 E 705
E
Sbjct: 235 E 235
>ref|XP_861572.1| PREDICTED: similar to major histocompatibility complex, class II,
DM alpha precursor isoform 2 [Canis familiaris]
Length = 170
Score = 66.6 bits (161), Expect = 4e-11
Identities = 40/131 (30%), Positives = 62/131 (47%)
Frame = +1
Query: 313 RNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINIT 492
R A L L+++ + A P V VF+ P+ G+PN L+C + ++FPP + +
Sbjct: 12 RQGAALLRLLHLLWLLPYSRTAPEGFPMVDVFTLKPLEFGKPNMLVCFISNLFPPTLTVN 71
Query: 493 WLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEP 672
W + V EG T + + SF SYL F P+ D + C V H + + +W P
Sbjct: 72 WWHHLDPV-EGIGPTFVSAVDGFSFQAFSYLNFTPAPSDLFSCVVTHEIDNYTAIAYWVP 130
Query: 673 EIPAPMSELTE 705
P S+L E
Sbjct: 131 HDALP-SDLLE 140
>ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2
[Canis familiaris]
Length = 125
Score = 66.2 bits (160), Expect = 6e-11
Identities = 33/98 (33%), Positives = 53/98 (54%)
Frame = +1
Query: 376 AVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRN 555
AV P++ V+S+ P G+PN L C+V PP I I LKNG + ++ SF
Sbjct: 27 AVQHPPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAEQTDLSF--SK 84
Query: 556 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 669
D +F + + F P++ D + C+V+H L +P + W+
Sbjct: 85 DWTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKWD 122
>ref|XP_850148.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 3
[Canis familiaris]
Length = 125
Score = 66.2 bits (160), Expect = 6e-11
Identities = 33/98 (33%), Positives = 53/98 (54%)
Frame = +1
Query: 376 AVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRN 555
AV P++ V+S+ P G+PN L C+V PP I I LKNG + ++ SF
Sbjct: 27 AVQHPPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAEQTDLSF--SK 84
Query: 556 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 669
D +F + + F P++ D + C+V+H L +P + W+
Sbjct: 85 DWTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKWD 122
>ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris]
Length = 269
Score = 65.5 bits (158), Expect = 1e-10
Identities = 30/103 (29%), Positives = 44/103 (42%)
Frame = +1
Query: 391 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 570
P VT+F +L N L+C V +P I + W +N T G T + D +F
Sbjct: 129 PTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIRNGDWTFQ 188
Query: 571 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 699
+ L P D Y C VEH L P+ W + + S++
Sbjct: 189 ILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKM 231
>ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris]
Length = 266
Score = 65.1 bits (157), Expect = 1e-10
Identities = 33/123 (26%), Positives = 54/123 (43%)
Frame = +1
Query: 331 KHNLNIVTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGH 510
+HN ++ + T P VTV+ L N L+C V+ +P I + WL+NG
Sbjct: 109 RHNYGVI---ESFTVQRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQ 165
Query: 511 SVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPM 690
G T + D +F + L +P + Y C+VEH L P+ W + +
Sbjct: 166 EEEAGVVSTGLIRNGDWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQ 225
Query: 691 SEL 699
S++
Sbjct: 226 SKM 228
Database: RefSeqCP
Posted date: Aug 1, 2006 9:25 PM
Number of letters in database: 19,266,565
Number of sequences in database: 33,732
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 45,018,437
Number of Sequences: 33732
Number of extensions: 1117324
Number of successful extensions: 3443
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 2957
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): 3427
length of database: 19,266,565
effective HSP length: 105
effective length of database: 15,724,705
effective search space used: 4512990335
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_0038_H10
(1178 letters)
Database: RefSeqHP
39,411 sequences; 17,774,539 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_949974.1| PREDICTED: similar to HLA class II histocompati... 396 e-110
Alignment gi|XP_949973.1| PREDICTED: similar to HLA class II histocompati... 396 e-110
Alignment gi|XP_949971.1| PREDICTED: similar to HLA class II histocompati... 396 e-110
Alignment gi|XP_945969.1| PREDICTED: similar to HLA class II histocompati... 396 e-110
Alignment gi|NP_064440.1| major histocompatibility complex, class II, DQ ... 383 e-106
Alignment gi|NP_002113.2| major histocompatibility complex, class II, DQ ... 379 e-105
Alignment gi|XP_941306.1| PREDICTED: similar to HLA class II histocompati... 370 e-102
Alignment gi|XP_941305.1| PREDICTED: similar to HLA class II histocompati... 370 e-102
Alignment gi|XP_941304.1| PREDICTED: similar to HLA class II histocompati... 370 e-102
Alignment gi|XP_941255.1| PREDICTED: similar to HLA class II histocompati... 370 e-102
>ref|XP_949974.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(1) alpha chain precursor (DC-4 alpha chain) isoform
10 [Homo sapiens]
Length = 255
Score = 396 bits (1017), Expect = e-110
Identities = 192/255 (75%), Positives = 208/255 (81%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DLE+KETVWQLPLF +F FDPQ AL NIA LKHNLNIV KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 774
PSDD+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 240
Query: 775 QGLRSGGPSRHQGSL 819
+GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255
>ref|XP_949973.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 9
[Homo sapiens]
Length = 255
Score = 396 bits (1017), Expect = e-110
Identities = 192/255 (75%), Positives = 208/255 (81%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DLE+KETVWQLPLF +F FDPQ AL NIA LKHNLNIV KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 774
PSDD+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 240
Query: 775 QGLRSGGPSRHQGSL 819
+GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255
>ref|XP_949971.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 8
[Homo sapiens]
Length = 255
Score = 396 bits (1017), Expect = e-110
Identities = 192/255 (75%), Positives = 208/255 (81%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DLE+KETVWQLPLF +F FDPQ AL NIA LKHNLNIV KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 774
PSDD+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 240
Query: 775 QGLRSGGPSRHQGSL 819
+GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255
>ref|XP_945969.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 1
[Homo sapiens]
Length = 255
Score = 396 bits (1017), Expect = e-110
Identities = 192/255 (75%), Positives = 208/255 (81%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DLE+KETVWQLPLF +F FDPQ AL NIA LKHNLNIV KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 774
PSDD+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 240
Query: 775 QGLRSGGPSRHQGSL 819
+GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255
>ref|NP_064440.1| major histocompatibility complex, class II, DQ alpha 2 [Homo
sapiens]
Length = 255
Score = 383 bits (984), Expect = e-106
Identities = 186/255 (72%), Positives = 204/255 (80%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
M+ + L+ GALALTAVMS CGGEDI ADHVASYG+N YQS+GPSG YTHEFDGDEEFYV
Sbjct: 1 MILNKALLLGALALTAVMSPCGGEDIVADHVASYGVNFYQSHGPSGQYTHEFDGDEEFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DLE KETVWQLP+FSKF SFDPQ ALRN+A KH L + ++SN+TAA N+VPEVTVFSK
Sbjct: 61 DLETKETVWQLPMFSKFISFDPQSALRNMAVGKHTLEFMMRQSNSTAATNEVPEVTVFSK 120
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
PV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 FPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 774
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETLVCALGLSVGLMGIVVGTVFII 240
Query: 775 QGLRSGGPSRHQGSL 819
QGLRS G SRHQG L
Sbjct: 241 QGLRSVGASRHQGLL 255
>ref|NP_002113.2| major histocompatibility complex, class II, DQ alpha 1 precursor
[Homo sapiens]
Length = 255
Score = 379 bits (973), Expect = e-105
Identities = 184/255 (72%), Positives = 202/255 (79%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
M+ + L+ GALALT VMS CGGEDI ADHVAS G+N+YQ YGPSG YTHEFDGDE+FYV
Sbjct: 1 MILNKALLLGALALTTVMSPCGGEDIVADHVASCGVNLYQFYGPSGQYTHEFDGDEQFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DLE+KET W+ P FSKF FDPQGALRN+A KHNLNI+ KR N+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETAWRWPEFSKFGGFDPQGALRNMAVAKHNLNIMIKRYNSTAATNEVPEVTVFSK 120
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
SPV LGQPNTLIC VD+IFPPV+NITWL NG SVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGQSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 774
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSADEIYDCKVEHWGLDQPLLKHWEPEIPAPMSELTETVVCALGLSVGLMGIVVGTVFII 240
Query: 775 QGLRSGGPSRHQGSL 819
QGLRS G SRHQG L
Sbjct: 241 QGLRSVGASRHQGPL 255
>ref|XP_941306.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
(HLA-DQA1*05011) (HLA-DQA1*0502) isoform 10 [Homo
sapiens]
Length = 254
Score = 370 bits (951), Expect = e-102
Identities = 183/255 (71%), Positives = 201/255 (78%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG YTHEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DL +KETVW LP+ +F FDPQ AL NIA LKHNLN + KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLGRKETVWCLPVLRQFR-FDPQFALTNIAVLKHNLNSLIKRSNSTAATNEVPEVTVFSK 119
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
SPV LGQPN LIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLT L
Sbjct: 120 SPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTLL 179
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 774
PS ++ YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET
Sbjct: 180 PSAEESYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVFII 239
Query: 775 QGLRSGGPSRHQGSL 819
+GLRS G SRHQG L
Sbjct: 240 RGLRSVGASRHQGPL 254
>ref|XP_941305.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
(HLA-DQA1*05011) (HLA-DQA1*0502) isoform 9 [Homo
sapiens]
Length = 254
Score = 370 bits (951), Expect = e-102
Identities = 183/255 (71%), Positives = 201/255 (78%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG YTHEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DL +KETVW LP+ +F FDPQ AL NIA LKHNLN + KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLGRKETVWCLPVLRQFR-FDPQFALTNIAVLKHNLNSLIKRSNSTAATNEVPEVTVFSK 119
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
SPV LGQPN LIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLT L
Sbjct: 120 SPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTLL 179
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 774
PS ++ YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET
Sbjct: 180 PSAEESYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVFII 239
Query: 775 QGLRSGGPSRHQGSL 819
+GLRS G SRHQG L
Sbjct: 240 RGLRSVGASRHQGPL 254
>ref|XP_941304.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
(HLA-DQA1*05011) (HLA-DQA1*0502) isoform 8 [Homo
sapiens]
Length = 254
Score = 370 bits (951), Expect = e-102
Identities = 183/255 (71%), Positives = 201/255 (78%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG YTHEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DL +KETVW LP+ +F FDPQ AL NIA LKHNLN + KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLGRKETVWCLPVLRQFR-FDPQFALTNIAVLKHNLNSLIKRSNSTAATNEVPEVTVFSK 119
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
SPV LGQPN LIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLT L
Sbjct: 120 SPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTLL 179
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 774
PS ++ YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET
Sbjct: 180 PSAEESYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVFII 239
Query: 775 QGLRSGGPSRHQGSL 819
+GLRS G SRHQG L
Sbjct: 240 RGLRSVGASRHQGPL 254
>ref|XP_941255.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
(HLA-DQA1*05011) (HLA-DQA1*0502) isoform 1 [Homo
sapiens]
Length = 254
Score = 370 bits (951), Expect = e-102
Identities = 183/255 (71%), Positives = 201/255 (78%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 234
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG YTHEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYV 60
Query: 235 DLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSK 414
DL +KETVW LP+ +F FDPQ AL NIA LKHNLN + KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLGRKETVWCLPVLRQFR-FDPQFALTNIAVLKHNLNSLIKRSNSTAATNEVPEVTVFSK 119
Query: 415 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 594
SPV LGQPN LIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLT L
Sbjct: 120 SPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTLL 179
Query: 595 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 774
PS ++ YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET
Sbjct: 180 PSAEESYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVFII 239
Query: 775 QGLRSGGPSRHQGSL 819
+GLRS G SRHQG L
Sbjct: 240 RGLRSVGASRHQGPL 254
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: 43,410,643
Number of Sequences: 39411
Number of extensions: 1112287
Number of successful extensions: 3552
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 3093
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): 3503
length of database: 17,774,539
effective HSP length: 104
effective length of database: 13,675,795
effective search space used: 3938628960
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_0038_H10
(1178 letters)
Database: RefSeqSP
1040 sequences; 434,620 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001004039.1| SLA-DM alpha chain [Sus scrofa] 76 2e-15
Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 73 2e-14
Alignment gi|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] 51 5e-08
Alignment gi|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] 45 4e-06
>ref|NP_001004039.1| SLA-DM alpha chain [Sus scrofa]
Length = 260
Score = 75.9 bits (185), Expect = 2e-15
Identities = 55/201 (27%), Positives = 90/201 (44%), Gaps = 3/201 (1%)
Frame = +1
Query: 112 ACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTS 291
A G D +H Y + Q P + +DGD+ F + + V +LP F+ +
Sbjct: 32 APGWRDELQNHTFQYTMYC-QDGNPEVGLSEVYDGDQLFSFNFSQNIRVPRLPEFADWAH 90
Query: 292 F--DPQGALRNIATLKHNLNIVTKRSNNTAAVNK-VPEVTVFSKSPVILGQPNTLICHVD 462
D + + + V V++ +P VF+ P+ G+PNTL+C V
Sbjct: 91 QIEDTPAIFFDKGFCREMIEKVGPLFEGKIPVSRGLPIAEVFTLKPLEFGKPNTLVCFVS 150
Query: 463 SIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGL 642
++FPP + +TW ++ + EG T + +D SF SYL F P+ D + C V H
Sbjct: 151 NLFPPALTVTW-EHHSAPVEGIGPTFVSATDDLSFQAFSYLNFTPTPSDLFSCVVTHELD 209
Query: 643 DKPLLKHWEPEIPAPMSELTE 705
+ +W P+ P S+L E
Sbjct: 210 GYVAISYWVPQNALP-SDLLE 229
>ref|NP_999143.1| beta 2-microglobulin [Sus scrofa]
Length = 118
Score = 72.8 bits (177), Expect = 2e-14
Identities = 39/98 (39%), Positives = 54/98 (55%)
Frame = +1
Query: 376 AVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRN 555
AV + P+V V+S+ P G+PN L C+V PP I I LKNG + S+ SF
Sbjct: 20 AVARPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SK 77
Query: 556 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 669
D SF + + F P+ D Y C+V+H LDKP + W+
Sbjct: 78 DWSFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 115
>ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa]
Length = 401
Score = 51.2 bits (121), Expect = 5e-08
Identities = 24/80 (30%), Positives = 37/80 (46%)
Frame = +1
Query: 442 TLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDC 621
TL C +P I++TW + G ++ D +F K + L P ++ Y C
Sbjct: 221 TLRCWALGFYPKEISLTWQQEGQDQSQDVEVVETRPSGDGTFRKWAALVVPPGEEQSYTC 280
Query: 622 KVEHWGLDKPLLKHWEPEIP 681
V+H GL +PL W+P P
Sbjct: 281 HVQHEGLQEPLTLRWDPPQP 300
>ref|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa]
Length = 356
Score = 44.7 bits (104), Expect = 4e-06
Identities = 30/85 (35%), Positives = 41/85 (48%)
Frame = +1
Query: 439 NTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYD 618
+ L C S +PP + + +L+NG + G E+ D SF S LT D+ Y
Sbjct: 218 SVLTCIAFSFYPPELQLRFLRNG--LAAGSGESDIGPNGDGSFHAWSSLTVKSGDEHHYC 275
Query: 619 CKVEHWGLDKPLLKHWEPEIPAPMS 693
C V+H GL +PL E E PA S
Sbjct: 276 CVVQHAGLAQPLTV--ELESPAKSS 298
Database: RefSeqSP
Posted date: Aug 1, 2006 7:14 PM
Number of letters in database: 434,620
Number of sequences in database: 1040
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,027,399
Number of Sequences: 1040
Number of extensions: 24499
Number of successful extensions: 58
Number of sequences better than 1.0e-05: 4
Number of HSP's better than 0.0 without gapping: 53
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): 55
length of database: 434,620
effective HSP length: 79
effective length of database: 352,460
effective search space used: 110319980
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_0038_H10
(1178 letters)
Database: RefSeqMP
45,328 sequences; 21,768,885 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 338 5e-93
Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 232 7e-61
Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 223 4e-58
Alignment gi|NP_034516.2| histocompatibility 2, class II, locus DMa [Mus ... 76 6e-14
Alignment gi|NP_033865.2| beta-2-microglobulin [Mus musculus] 70 4e-12
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 68 2e-11
Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 64 3e-10
Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 64 3e-10
Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 64 4e-10
Alignment gi|NP_034512.1| histocompatibility 2, class II antigen E beta [... 60 4e-09
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus]
Length = 256
Score = 338 bits (868), Expect = 5e-93
Identities = 164/256 (64%), Positives = 189/256 (73%), Gaps = 1/256 (0%)
Frame = +1
Query: 55 MVPGRVLMWGALALTAVMSACGGED-IAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFY 231
M R L+ G LALT ++S CGGED I ADHV +YG++VYQS G G YT EFDGDE FY
Sbjct: 1 MPRSRALILGVLALTTMLSLCGGEDDIEADHVGTYGISVYQSPGDIGQYTFEFDGDELFY 60
Query: 232 VDLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFS 411
VDL+KKETVW LP F + SFDPQG L+NIA +KHNL ++TKRSN+T A N+ P+ TVF
Sbjct: 61 VDLDKKETVWMLPEFGQLASFDPQGGLQNIAVVKHNLGVLTKRSNSTPATNEAPQATVFP 120
Query: 412 KSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTF 591
KSPV+LGQPNTLIC VD+IFPPVINITWL+N SV +G ETSF D+SF K+SYLTF
Sbjct: 121 KSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFHKLSYLTF 180
Query: 592 LPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXX 771
+PSDDD YDCKVEHWGL++P+LKHWEPEIPAPMSELTET
Sbjct: 181 IPSDDDIYDCKVEHWGLEEPVLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTIFI 240
Query: 772 XQGLRSGGPSRHQGSL 819
QGLRSGG SRH G L
Sbjct: 241 IQGLRSGGTSRHPGPL 256
>ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus]
Length = 250
Score = 232 bits (591), Expect = 7e-61
Identities = 110/207 (53%), Positives = 144/207 (69%)
Frame = +1
Query: 88 LALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQL 267
L + + +S G I ADH+ SYG YQSY SG +THEFDG++ F VDL+ +E VW+L
Sbjct: 12 LTVMSFLSPRGVRAIKADHMGSYGPAFYQSYDASGQFTHEFDGEQIFSVDLKNEEVVWRL 71
Query: 268 PLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTL 447
P F F D Q L +I+ +K +L+I+ +RSN T AV+ P VTV K+ V LG+PN L
Sbjct: 72 PEFGDFAHSDFQSGLMSISMIKAHLDILVERSNRTRAVSVPPRVTVLPKTRVELGKPNVL 131
Query: 448 ICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKV 627
IC VD IFPPVIN+TWL+N +T+G ++TSF S+ +H F K YLTF+PS +D YDCKV
Sbjct: 132 ICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHRFRKFHYLTFVPSAEDVYDCKV 191
Query: 628 EHWGLDKPLLKHWEPEIPAPMSELTET 708
EHWGLD PLL+HWEP++ P + TET
Sbjct: 192 EHWGLDTPLLQHWEPQVLTPPPDTTET 218
>ref|NP_034511.2| histocompatibility 2, class II antigen E alpha [Mus musculus]
Length = 255
Score = 223 bits (567), Expect = 4e-58
Identities = 103/172 (59%), Positives = 127/172 (73%)
Frame = +1
Query: 190 GYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNN 369
G + +FDGDE F+VD+EK ET+W+L F+KF SF+ QGAL NIA K NL+++ +RSNN
Sbjct: 45 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 104
Query: 370 TAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLS 549
T N PEVTV S+SPV LG+PN LIC +D PPV+N+TW +NG VTEG SET FL
Sbjct: 105 TPDANVAPEVTVLSRSPVNLGEPNILICFIDKFSPPVVNVTWFRNGRPVTEGVSETVFLP 164
Query: 550 RNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 705
R+DH F K YLTFLPS DDFYDC+V+HWGL++PL KHWE E + E TE
Sbjct: 165 RDDHLFRKFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHWEFEEKTLLPETTE 216
>ref|NP_034516.2| histocompatibility 2, class II, locus DMa [Mus musculus]
Length = 261
Score = 76.3 bits (186), Expect = 6e-14
Identities = 53/171 (30%), Positives = 78/171 (45%), Gaps = 5/171 (2%)
Frame = +1
Query: 208 FDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVT-----KRSNNT 372
+D DE F D + V QLP F+++ QG IA K ++ K
Sbjct: 63 YDEDELFSFDFSQNTRVPQLPDFAEWAQ--GQGDASAIAFDKSFCEMLMREVSPKLEGQI 120
Query: 373 AAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSR 552
+P VF+ P+ G+PNTL+C + ++FPP + + W + V EG S TS +
Sbjct: 121 PVSRGLPVAEVFTLKPLEFGKPNTLVCFISNLFPPTLTVNWQLHSAPV-EGASPTSISAV 179
Query: 553 NDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 705
+ +F SYL F P D Y C V H + +W P+ P S+L E
Sbjct: 180 DGLTFQAFSYLNFTPEPFDLYSCTVTHEIDRYTAIAYWVPQNALP-SDLLE 229
>ref|NP_033865.2| beta-2-microglobulin [Mus musculus]
Length = 119
Score = 70.1 bits (170), Expect = 4e-12
Identities = 35/102 (34%), Positives = 58/102 (56%), Gaps = 1/102 (0%)
Frame = +1
Query: 376 AVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTE-GFSETSFLSR 552
A+ K P++ V+S+ P G+PN L C+V PP I I LKNG + + S+ SF
Sbjct: 20 AIQKTPQIQVYSRHPPENGKPNILNCYVTQFHPPHIEIQMLKNGKKIPKVEMSDMSF--S 77
Query: 553 NDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEI 678
D SF +++ F P++ D Y C+V+H + +P +W+ ++
Sbjct: 78 KDWSFYILAHTEFTPTETDTYACRVKHASMAEPKTVYWDRDM 119
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus]
Length = 271
Score = 67.8 bits (164), Expect = 2e-11
Identities = 34/99 (34%), Positives = 47/99 (47%)
Frame = +1
Query: 370 TAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLS 549
T N PEVTV+ + +L Q N L+C V +P I++ W +NG G T +
Sbjct: 116 TVERNVPPEVTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVR 175
Query: 550 RNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHW 666
D +F L +P D Y C VEH GL +P+ W
Sbjct: 176 NGDWTFQTTVMLEMIPELGDIYSCLVEHPGLLRPVSVAW 214
>ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus]
Length = 261
Score = 63.9 bits (154), Expect = 3e-10
Identities = 32/97 (32%), Positives = 47/97 (48%), Gaps = 1/97 (1%)
Frame = +1
Query: 385 KVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-TEGFSETSFLSRNDH 561
+ P V V +P +P L C+V +P + ITW+KNG V + E + D
Sbjct: 113 RAPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDW 172
Query: 562 SFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEP 672
++ +SYL PS D Y C V+H G +P+ W P
Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTP 209
>ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus]
Length = 261
Score = 63.9 bits (154), Expect = 3e-10
Identities = 32/97 (32%), Positives = 47/97 (48%), Gaps = 1/97 (1%)
Frame = +1
Query: 385 KVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-TEGFSETSFLSRNDH 561
+ P V V +P +P L C+V +P + ITW+KNG V + E + D
Sbjct: 113 RAPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDW 172
Query: 562 SFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEP 672
++ +SYL PS D Y C V+H G +P+ W P
Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTP 209
>ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus]
Length = 265
Score = 63.5 bits (153), Expect = 4e-10
Identities = 30/103 (29%), Positives = 44/103 (42%)
Frame = +1
Query: 391 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 570
P V + L NTL+C V +P I + W +NG T G S T + D +F
Sbjct: 125 PNVVISLSRTEALNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIRNGDWTFQ 184
Query: 571 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 699
+ L P + Y C VEH L P+ W + + S++
Sbjct: 185 VLVMLEMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKM 227
>ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus]
Length = 264
Score = 60.1 bits (144), Expect = 4e-09
Identities = 28/103 (27%), Positives = 46/103 (44%)
Frame = +1
Query: 391 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 570
P VTV+ L N L+C V +P I + W +NG G T + D +F
Sbjct: 124 PTVTVYPTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQ 183
Query: 571 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 699
+ L +P + Y C+VEH L P+ W+ + + +++
Sbjct: 184 TLVMLETVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKM 226
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: 51,725,210
Number of Sequences: 45328
Number of extensions: 1282957
Number of successful extensions: 4138
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 3706
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): 4126
length of database: 21,768,885
effective HSP length: 105
effective length of database: 17,009,445
effective search space used: 4881710715
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)