Search to RefSeqBP_Rel44
BLASTX 2.2.24 [Aug-08-2010]
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= 20101001C-001170
(1285 letters)
Database: RefSeq44_BP.fasta
33,615 sequences; 18,071,151 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001012693.1| major histocompatibility complex, class II, ... 376 e-104
Alignment gi|NP_001013619.3| major histocompatibility complex, class II, ... 371 e-103
Alignment gi|XP_002702914.1| PREDICTED: BOLA-DQA2 protein-like [Bos tauru... 367 e-101
Alignment gi|NP_001073045.1| major histocompatibility complex, class II, ... 358 8e-99
Alignment gi|NP_001012699.1| major histocompatibility complex, class II, ... 344 1e-94
Alignment gi|NP_001012696.1| major histocompatibility complex, class II, ... 312 5e-85
Alignment gi|XP_002697222.1| PREDICTED: MHC class II antigen-like [Bos ta... 242 5e-64
Alignment gi|XP_604082.2| PREDICTED: MHC class II antigen-like isoform 1 ... 242 5e-64
Alignment gi|XP_002702869.1| PREDICTED: MHC class II antigen-like [Bos ta... 229 3e-60
Alignment gi|NP_001012695.1| major histocompatibility complex, class II, ... 228 9e-60
>ref|NP_001012693.1| major histocompatibility complex, class II, DQ alpha 5 [Bos
taurus].
Length = 255
Score = 376 bits (966), Expect = e-104
Identities = 184/255 (72%), Positives = 201/255 (78%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
MV R L+ G LALT +MS GGEDI ADHV YG+++YQSYGPSG YTHEFDGDE+FYV
Sbjct: 1 MVLNRALILGTLALTTMMSPSGGEDIVADHVGIYGISIYQSYGPSGQYTHEFDGDEQFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL KKET WQLPLFS+ SFDPQ ALRNIA K +++ L K SN+TAA N+VPEVTVF K
Sbjct: 61 DLEKKETAWQLPLFSRMLSFDPQLALRNIAIMKLHVDFLTKFSNSTAATNKVPEVTVFSK 120
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPVMLGQPNTLICHVDNIFPPVINITWL+NGHSVTEG SETSFL ++D+SFLKI YL FL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLRNGHSVTEGVSETSFLIRSDYSFLKIKYLAFL 180
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSDDDIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCTLGLTMGLVGITVGTIFII 240
Query: 881 QGLRSGGPSRHQGSL 925
QGLRSG PSRHQG L
Sbjct: 241 QGLRSGDPSRHQGPL 255
>ref|NP_001013619.3| major histocompatibility complex, class II, DQ alpha, type 1 [Bos
taurus].
Length = 255
Score = 371 bits (952), Expect = e-103
Identities = 178/255 (69%), Positives = 198/255 (77%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
MV R L+ GAL LT + S CGGEDI ADH+ +YG + YQS+GPSG Y HEFDGDE FYV
Sbjct: 1 MVLNRALILGALTLTTMTSLCGGEDIVADHIGTYGADFYQSHGPSGQYIHEFDGDELFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DLGKKETVWQLP+F + SF+ Q AL IA AKH L++L KRSN T +N+VPEVTVF K
Sbjct: 61 DLGKKETVWQLPMFGELTSFEAQDALNEIAKAKHTLDVLTKRSNFTPVINEVPEVTVFSK 120
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SP+MLGQPNTLICHVDNIFPPVINITWL+NGH+VTEG SETSFL K+D+SFLKI YLTFL
Sbjct: 121 SPMMLGQPNTLICHVDNIFPPVINITWLRNGHAVTEGVSETSFLPKSDYSFLKIGYLTFL 180
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSDDDVYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLTVGLVGIVVGTVLII 240
Query: 881 QGLRSGGPSRHQGSL 925
+GLRSGG SRHQG L
Sbjct: 241 RGLRSGGASRHQGPL 255
>ref|XP_002702914.1| PREDICTED: BOLA-DQA2 protein-like [Bos taurus].
Length = 254
Score = 367 bits (943), Expect = e-101
Identities = 180/255 (70%), Positives = 199/255 (78%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
MV R L+ GA ALT +MS CGGEDI ADHV SYG + QS+GPS YT EFDGD+ FYV
Sbjct: 1 MVLNRALILGAFALTTMMSPCGGEDIVADHVGSYGTVISQSHGPSDQYTQEFDGDKLFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL KKETVW+LP+FS+F SFDPQ LRNIA +KHNLNI+IK SN A+N+VPEVTVF K
Sbjct: 61 DLEKKETVWRLPMFSQFASFDPQAILRNIAISKHNLNIMIKYSNFIPAINEVPEVTVFSK 120
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SP++LGQPNTLICH+DN FPPVINITWLKNGH+VTEG SETSFL K+DHSFLKI YLTFL
Sbjct: 121 SPMVLGQPNTLICHMDN-FPPVINITWLKNGHAVTEGVSETSFLPKDDHSFLKIGYLTFL 179
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PSDDD YDCKVEHW LD+PLLKHWEPE+PAPMSELTET
Sbjct: 180 PSDDDVYDCKVEHWSLDEPLLKHWEPEVPAPMSELTETVVCALRLTVGLVGIVVGTIFII 239
Query: 881 QGLRSGGPSRHQGSL 925
QGLRSGG SRHQG L
Sbjct: 240 QGLRSGGASRHQGPL 254
>ref|NP_001073045.1| major histocompatibility complex, class II, DQ alpha, type 3 [Bos
taurus].
Length = 254
Score = 358 bits (918), Expect = 8e-99
Identities = 175/255 (68%), Positives = 195/255 (76%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
MV R L+ GAL LT + S CGGEDI ADHV +YG + YQS+GPSG Y H+FDGDEEFYV
Sbjct: 1 MVLNRALILGALTLTTMTSLCGGEDIVADHVGTYGTDFYQSHGPSGQYIHQFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL K+E VW+LP+F K R F PQGALRNIA AKHNL++L K N T +N+VPEVTVF K
Sbjct: 61 DLEKEEAVWRLPMFDKLR-FHPQGALRNIAIAKHNLDVLTKLYNFTPVINEVPEVTVFSK 119
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPVML QPNTLICHVDNIFPPVINITWL+NGHSVTE SETSFL ++D+S+LKISYL F
Sbjct: 120 SPVMLSQPNTLICHVDNIFPPVINITWLRNGHSVTEHVSETSFLLRSDYSYLKISYLPFR 179
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 180 PSDDDVYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLTVGLVGIVVGTVLIT 239
Query: 881 QGLRSGGPSRHQGSL 925
+GLRS G SRHQG L
Sbjct: 240 RGLRSSGASRHQGPL 254
>ref|NP_001012699.1| major histocompatibility complex, class II, DQ alpha 2 [Bos
taurus].
Length = 268
Score = 344 bits (882), Expect = 1e-94
Identities = 161/204 (78%), Positives = 177/204 (86%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
MV R L+ GALALT +MS+ GGEDI ADHV SYG +YQS+GPSG YT EFDGDE FYV
Sbjct: 1 MVLNRALILGALALTTMMSSSGGEDIVADHVGSYGTEIYQSHGPSGQYTQEFDGDEMFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DLGKKETVW+LP+FS+F FDPQ AL IATAKHNL++L KRSN T +N+VPEVTVF K
Sbjct: 61 DLGKKETVWRLPMFSQFAGFDPQAALSEIATAKHNLDVLTKRSNFTPVINEVPEVTVFSK 120
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPVMLGQPNTLICHVDNIFPPVINITWLKNGH+VTEG SETSFL K+DHSFLKI YLTFL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHAVTEGVSETSFLPKDDHSFLKIGYLTFL 180
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHW 772
PSD+D YDCKVEHWGLD+PLLKHW
Sbjct: 181 PSDNDIYDCKVEHWGLDEPLLKHW 204
>ref|NP_001012696.1| major histocompatibility complex, class II, DY alpha [Bos taurus].
Length = 253
Score = 312 bits (799), Expect = 5e-85
Identities = 146/214 (68%), Positives = 171/214 (79%)
Frame = +2
Query: 173 RVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGK 352
+ L+ AL L +MS GGEDI ADHV +YG NVYQ+YG SG +T EFDGDE FYVDLGK
Sbjct: 3 KALILRALTLATMMSPYGGEDIVADHVGTYGTNVYQTYGASGQFTFEFDGDELFYVDLGK 62
Query: 353 KETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVM 532
KETVW+LP FS F+ Q ALRNI +K NL+ILIK S+ T A +++PEV VFPKS V+
Sbjct: 63 KETVWRLPEFSNITKFEVQSALRNIVMSKRNLDILIKNSSFTPATSEIPEVAVFPKSSVV 122
Query: 533 LGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDD 712
LG PNTLIC VDNIFPPVINITW NGH V EG +ET+F K+DHSFLK SYLTFLP+++
Sbjct: 123 LGIPNTLICQVDNIFPPVINITWFYNGHFVAEGIAETTFYPKSDHSFLKFSYLTFLPTNE 182
Query: 713 DFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 814
DFYDC+VEHWGL++PL+KHWEPEIP P SELTET
Sbjct: 183 DFYDCRVEHWGLEEPLVKHWEPEIPTPTSELTET 216
>ref|XP_002697222.1| PREDICTED: MHC class II antigen-like [Bos taurus].
Length = 250
Score = 242 bits (618), Expect = 5e-64
Identities = 116/212 (54%), Positives = 146/212 (68%)
Frame = +2
Query: 179 LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKE 358
L+ G L ++S I ADH+ SYG YQSY +G +T++FDG++ F VDL K+E
Sbjct: 7 LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66
Query: 359 TVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLG 538
VW+LP F F FDPQ L +IA K +L L+KRSN T A N P V V PKS V LG
Sbjct: 67 AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126
Query: 539 QPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDF 718
+PN LIC VD IFPPVINITWL+NGH VT+G +++SF ++ DH F K YLTF+P DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186
Query: 719 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 814
YDCKVEHWGLD+PL +HWEP++P + + T T
Sbjct: 187 YDCKVEHWGLDQPLFQHWEPQVPTALPDTTGT 218
>ref|XP_604082.2| PREDICTED: MHC class II antigen-like isoform 1 [Bos taurus].
Length = 250
Score = 242 bits (618), Expect = 5e-64
Identities = 116/212 (54%), Positives = 146/212 (68%)
Frame = +2
Query: 179 LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKE 358
L+ G L ++S I ADH+ SYG YQSY +G +T++FDG++ F VDL K+E
Sbjct: 7 LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66
Query: 359 TVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLG 538
VW+LP F F FDPQ L +IA K +L L+KRSN T A N P V V PKS V LG
Sbjct: 67 AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126
Query: 539 QPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDF 718
+PN LIC VD IFPPVINITWL+NGH VT+G +++SF ++ DH F K YLTF+P DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186
Query: 719 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 814
YDCKVEHWGLD+PL +HWEP++P + + T T
Sbjct: 187 YDCKVEHWGLDQPLFQHWEPQVPTALPDTTGT 218
>ref|XP_002702869.1| PREDICTED: MHC class II antigen-like [Bos taurus].
Length = 224
Score = 229 bits (585), Expect = 3e-60
Identities = 111/198 (56%), Positives = 137/198 (69%)
Frame = +2
Query: 179 LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKE 358
L+ G L ++S I ADH+ SYG YQSY +G +T++FDG++ F VDL K+E
Sbjct: 7 LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66
Query: 359 TVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLG 538
VW+LP F F FDPQ L +IA K +L L+KRSN T A N P V V PKS V LG
Sbjct: 67 AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126
Query: 539 QPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDF 718
+PN LIC VD IFPPVINITWL+NGH VT+G +++SF ++ DH F K YLTF+P DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186
Query: 719 YDCKVEHWGLDKPLLKHW 772
YDCKVEHWGLD+PL +HW
Sbjct: 187 YDCKVEHWGLDQPLFQHW 204
>ref|NP_001012695.1| major histocompatibility complex, class II, DR alpha [Bos taurus].
Length = 253
Score = 228 bits (581), Expect = 9e-60
Identities = 106/173 (61%), Positives = 129/173 (74%)
Frame = +2
Query: 293 SGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSN 472
S + +FDGDE F+VD+GKKETVW+LP F F SF+ QGAL N+A K NL+I+IKRSN
Sbjct: 43 SAEFMFDFDGDEIFHVDMGKKETVWRLPEFGHFASFEAQGALANMAVMKANLDIMIKRSN 102
Query: 473 NTAAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFL 652
NT N PEVT+ P PV LG+PNTLIC +D PPVI++TWL+NG VT+G S+T FL
Sbjct: 103 NTPNTNVPPEVTLLPNKPVELGEPNTLICFIDKFSPPVISVTWLRNGKPVTDGVSQTVFL 162
Query: 653 SKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 811
+NDH F K YL FLP+ +D YDCKVEH GL++PLLKHWE E PAP+ E TE
Sbjct: 163 PRNDHLFRKFHYLPFLPTTEDVYDCKVEHLGLNEPLLKHWEYEAPAPLPETTE 215
Database: RefSeq44_BP.fasta
Posted date: Nov 15, 2010 4:36 PM
Number of letters in database: 18,071,151
Number of sequences in database: 33,615
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 Sequences: 33615
Number of Hits to DB: 43,913,913
Number of extensions: 1076712
Number of successful extensions: 3231
Number of sequences better than 1.0e-05: 52
Number of HSP's gapped: 3211
Number of HSP's successfully gapped: 52
Length of query: 428
Length of database: 18,071,151
Length adjustment: 105
Effective length of query: 323
Effective length of database: 14,541,576
Effective search space: 4696929048
Effective search space used: 4696929048
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqCP_Rel44
BLASTX 2.2.24 [Aug-08-2010]
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= 20101001C-001170
(1285 letters)
Database: RefSeq44_CP.fasta
33,359 sequences; 18,921,627 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001011726.1| major histocompatibility complex, class II, ... 386 e-107
Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 233 2e-61
Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis lupus fam... 227 2e-59
Alignment gi|XP_532104.2| PREDICTED: similar to HLA class II histocompati... 100 5e-21
Alignment gi|NP_001014403.1| major histocompatibility complex, class II, ... 68 2e-11
Alignment gi|NP_001014768.1| DLA class II histocompatibility antigen, DR-... 68 2e-11
Alignment gi|NP_001041564.1| major histocompatibility complex, class II, ... 68 2e-11
Alignment gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec... 65 1e-10
Alignment gi|XP_850148.1| PREDICTED: similar to beta-2-microglobulin prec... 65 1e-10
Alignment gi|NP_001041592.1| major histocompatibility complex, class II, ... 60 3e-09
>ref|NP_001011726.1| major histocompatibility complex, class II, DQ alpha [Canis lupus
familiaris].
Length = 255
Score = 386 bits (991), Expect = e-107
Identities = 187/255 (73%), Positives = 203/255 (79%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
M+ RVL+ G L LT +MS GGE+I ADHVA+YG+NVYQSYGPSG YTHEFDGDEEFYV
Sbjct: 1 MILNRVLILGTLILTIMMSPSGGEEIVADHVANYGINVYQSYGPSGQYTHEFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL KKETVW+LP+FS FRSFDPQGALRN+A K NLNI+ KRSN TAA N+VPEVTVF K
Sbjct: 61 DLEKKETVWRLPVFSTFRSFDPQGALRNLAIIKQNLNIMTKRSNQTAATNEVPEVTVFSK 120
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPVMLGQPNTLIC VDNIFPPVIN+TWLKN HSVTEG SETSF +K DHSF KISYLTFL
Sbjct: 121 SPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFSKISYLTFL 180
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PS +D YDCKVEHWGLD+PLLKHWEPE+P PMSELTET
Sbjct: 181 PSAEDIYDCKVEHWGLDEPLLKHWEPEVPTPMSELTETVVCALGLAVGLVGIVMGTVFII 240
Query: 881 QGLRSGGPSRHQGSL 925
QGLRSGG SRHQG L
Sbjct: 241 QGLRSGGTSRHQGPL 255
>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 = 233 bits (595), Expect = 2e-61
Identities = 108/195 (55%), Positives = 138/195 (70%), Gaps = 7/195 (3%)
Frame = +2
Query: 251 VASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGALRNIA 430
+ SYG YQSYG SG + HEFDG++ F V+L K++ VW+LP F FDPQ L +IA
Sbjct: 1 MGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLASIA 60
Query: 431 TAKHNLNILIKRSNNTAAVNQV-------PEVTVFPKSPVMLGQPNTLICHVDNIFPPVI 589
K +L++L++RSN T A+N P V V PK V LGQPN LIC VDNIFPPVI
Sbjct: 61 VIKAHLDVLVERSNRTRAINGTHLSSPLPPRVAVLPKFRVELGQPNVLICIVDNIFPPVI 120
Query: 590 NITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKH 769
NITWL+NG ++EG ++TSF S+ DH F K YLTF+PS +D YDCKVEHWGL++PLL+H
Sbjct: 121 NITWLRNGQIISEGVAQTSFYSQPDHLFRKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRH 180
Query: 770 WEPEIPAPMSELTET 814
WEP++P P+ + ET
Sbjct: 181 WEPQVPIPVPDTIET 195
>ref|NP_001011723.1| MHC class II DR alpha chain [Canis lupus familiaris].
Length = 254
Score = 227 bits (579), Expect = 2e-59
Identities = 108/179 (60%), Positives = 129/179 (72%)
Frame = +2
Query: 275 YQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNI 454
Y + PSG + +FDGDE F+VD+ KKETVW+L F +F SF+ QGAL NIA K NL+
Sbjct: 38 YLTPDPSGEFMFDFDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDT 97
Query: 455 LIKRSNNTAAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGF 634
+IKRSN+T N PEVTV +PV LG+PN LIC +D PPVIN+TWL+NG+ VT G
Sbjct: 98 MIKRSNHTPNTNVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGV 157
Query: 635 SETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 811
SET FL + DH F K YL FLPS +D YDCKVEHWGLD+PLLKHWE E P P+ E TE
Sbjct: 158 SETIFLPREDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHWEFEPPTPLPETTE 216
>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 = 50/108 (46%), Positives = 69/108 (63%)
Frame = +2
Query: 236 IAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGA 415
I ADH+ SYG YQSYG SG + HEFDG++ F V+L K++ VW+LP F FDPQ
Sbjct: 12 IEADHMGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNG 71
Query: 416 LRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLGQPNTLIC 559
L +IA K +L++L++RSN T A+N+ P+V + + TLIC
Sbjct: 72 LASIAVIKAHLDVLVERSNRTRAINE-PQVPIPVPDTI-----ETLIC 113
>ref|NP_001014403.1| major histocompatibility complex, class II, DQ beta 1 [Canis lupus
familiaris].
Length = 269
Score = 68.2 bits (165), Expect = 2e-11
Identities = 31/103 (30%), Positives = 46/103 (44%)
Frame = +2
Query: 497 PEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFL 676
P VT+FP +L N L+C V + +P I + W +N T G T + D +F
Sbjct: 129 PTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIRNGDWTFQ 188
Query: 677 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 805
+ L P D Y C VEH L P+ W + + S++
Sbjct: 189 ILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKM 231
>ref|NP_001014768.1| DLA class II histocompatibility antigen, DR-1 beta chain precursor
[Canis lupus familiaris].
Length = 266
Score = 67.8 bits (164), Expect = 2e-11
Identities = 34/123 (27%), Positives = 55/123 (44%)
Frame = +2
Query: 437 KHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGH 616
+HN ++ + T P VTV+P L N L+C V+ +P I + WL+NG
Sbjct: 109 RHNYGVI---ESFTVQRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQ 165
Query: 617 SVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPM 796
G T + D +F + L +P + Y C+VEH L P+ W + +
Sbjct: 166 EEEAGVVSTGLIRNGDWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQ 225
Query: 797 SEL 805
S++
Sbjct: 226 SKM 228
>ref|NP_001041564.1| major histocompatibility complex, class II, DM alpha [Canis lupus
familiaris].
Length = 170
Score = 67.8 bits (164), Expect = 2e-11
Identities = 36/105 (34%), Positives = 52/105 (49%)
Frame = +2
Query: 497 PEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFL 676
P V VF P+ G+PN L+C + N+FPP + + W + V EG T + + SF
Sbjct: 38 PMVDVFTLKPLEFGKPNMLVCFISNLFPPTLTVNWWHHLDPV-EGIGPTFVSAVDGFSFQ 96
Query: 677 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 811
SYL F P+ D + C V H + + +W P P S+L E
Sbjct: 97 AFSYLNFTPAPSDLFSCVVTHEIDNYTAIAYWVPHDALP-SDLLE 140
>ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2
[Canis familiaris].
Length = 125
Score = 65.5 bits (158), Expect = 1e-10
Identities = 32/98 (32%), Positives = 52/98 (53%)
Frame = +2
Query: 482 AVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKN 661
AV P++ V+ + P G+PN L C+V PP I I LKNG + ++ SF
Sbjct: 27 AVQHPPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAEQTDLSF--SK 84
Query: 662 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 775
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 = 65.5 bits (158), Expect = 1e-10
Identities = 32/98 (32%), Positives = 52/98 (53%)
Frame = +2
Query: 482 AVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKN 661
AV P++ V+ + P G+PN L C+V PP I I LKNG + ++ SF
Sbjct: 27 AVQHPPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAEQTDLSF--SK 84
Query: 662 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 775
D +F + + F P++ D + C+V+H L +P + W+
Sbjct: 85 DWTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKWD 122
>ref|NP_001041592.1| major histocompatibility complex, class II, DO beta [Canis lupus
familiaris].
Length = 270
Score = 60.5 bits (145), Expect = 3e-09
Identities = 30/95 (31%), Positives = 41/95 (43%)
Frame = +2
Query: 497 PEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFL 676
PEVTV+P+ + N L+C V +P I I W +NG G T + D +F
Sbjct: 123 PEVTVYPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQ 182
Query: 677 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPE 781
+ L P D Y C V H L P+ W +
Sbjct: 183 TMVMLEMTPELGDVYTCLVNHPSLLSPVSVEWRAQ 217
Database: RefSeq44_CP.fasta
Posted date: Nov 15, 2010 4:36 PM
Number of letters in database: 18,921,627
Number of sequences in database: 33,359
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 Sequences: 33359
Number of Hits to DB: 44,960,329
Number of extensions: 1089031
Number of successful extensions: 3358
Number of sequences better than 1.0e-05: 19
Number of HSP's gapped: 3339
Number of HSP's successfully gapped: 19
Length of query: 428
Length of database: 18,921,627
Length adjustment: 106
Effective length of query: 322
Effective length of database: 15,385,573
Effective search space: 4954154506
Effective search space used: 4954154506
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqHP_Rel44
BLASTX 2.2.24 [Aug-08-2010]
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= 20101001C-001170
(1285 letters)
Database: RefSeq44_HP.fasta
33,950 sequences; 18,324,212 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_003121104.1| PREDICTED: HLA class II histocompatibility a... 395 e-110
Alignment gi|XP_003121103.1| PREDICTED: HLA class II histocompatibility a... 395 e-110
Alignment gi|XP_003119375.1| PREDICTED: HLA class II histocompatibility a... 394 e-109
Alignment gi|XP_003119374.1| PREDICTED: HLA class II histocompatibility a... 394 e-109
Alignment gi|XP_003119477.1| PREDICTED: HLA class II histocompatibility a... 390 e-108
Alignment gi|XP_003119476.1| PREDICTED: HLA class II histocompatibility a... 390 e-108
Alignment gi|XP_003119345.1| PREDICTED: HLA class II histocompatibility a... 385 e-107
Alignment gi|XP_003119343.1| PREDICTED: HLA class II histocompatibility a... 385 e-107
Alignment gi|XP_003119313.1| PREDICTED: HLA class II histocompatibility a... 385 e-107
Alignment gi|XP_003119311.1| PREDICTED: HLA class II histocompatibility a... 385 e-107
>ref|XP_003121104.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 2 [Homo sapiens].
Length = 255
Score = 395 bits (1015), Expect = e-110
Identities = 192/255 (75%), Positives = 207/255 (81%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL +KETVWQLPLF +FR FDPQ AL NIA KHNLNI+IKRSN+TAA N+VPEVTVF K
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PSDD+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 240
Query: 881 QGLRSGGPSRHQGSL 925
+GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255
>ref|XP_003121103.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 1 [Homo sapiens].
Length = 255
Score = 395 bits (1015), Expect = e-110
Identities = 192/255 (75%), Positives = 207/255 (81%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL +KETVWQLPLF +FR FDPQ AL NIA KHNLNI+IKRSN+TAA N+VPEVTVF K
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PSDD+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 240
Query: 881 QGLRSGGPSRHQGSL 925
+GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255
>ref|XP_003119375.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 2 [Homo sapiens].
Length = 255
Score = 394 bits (1011), Expect = e-109
Identities = 191/255 (74%), Positives = 206/255 (80%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL +KETVWQLPLF +FR FDPQ AL NIA KHNLNI+IKRSN+TAA N+VPEVTVF K
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PSDD+ YDCKVEHWGLD+PLLKHWEPEIP PMSELTET
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPTPMSELTETVVCALGLSVGLVGIVVGTVLII 240
Query: 881 QGLRSGGPSRHQGSL 925
+GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255
>ref|XP_003119374.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 1 [Homo sapiens].
Length = 255
Score = 394 bits (1011), Expect = e-109
Identities = 191/255 (74%), Positives = 206/255 (80%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL +KETVWQLPLF +FR FDPQ AL NIA KHNLNI+IKRSN+TAA N+VPEVTVF K
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PSDD+ YDCKVEHWGLD+PLLKHWEPEIP PMSELTET
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPTPMSELTETVVCALGLSVGLVGIVVGTVLII 240
Query: 881 QGLRSGGPSRHQGSL 925
+GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255
>ref|XP_003119477.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 2 [Homo sapiens].
Length = 255
Score = 390 bits (1003), Expect = e-108
Identities = 190/255 (74%), Positives = 205/255 (80%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL +KETVWQLPLF +FR FDPQ AL NIA KHNLNI+IKRSN+TAA N+VPEVTVF K
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PS D+ YDCKVEHWGLD+PLLKHWEPEIP PMSELTET
Sbjct: 181 PSADEIYDCKVEHWGLDEPLLKHWEPEIPTPMSELTETVVCALGLSVGLVGIVVGTVLII 240
Query: 881 QGLRSGGPSRHQGSL 925
+GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255
>ref|XP_003119476.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 1 [Homo sapiens].
Length = 255
Score = 390 bits (1003), Expect = e-108
Identities = 190/255 (74%), Positives = 205/255 (80%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL +KETVWQLPLF +FR FDPQ AL NIA KHNLNI+IKRSN+TAA N+VPEVTVF K
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PS D+ YDCKVEHWGLD+PLLKHWEPEIP PMSELTET
Sbjct: 181 PSADEIYDCKVEHWGLDEPLLKHWEPEIPTPMSELTETVVCALGLSVGLVGIVVGTVLII 240
Query: 881 QGLRSGGPSRHQGSL 925
+GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255
>ref|XP_003119345.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 3 [Homo sapiens].
Length = 254
Score = 385 bits (989), Expect = e-107
Identities = 190/255 (74%), Positives = 205/255 (80%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG +THEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL +KETVW+LPLF + R FDPQ AL NIA KHNLNILIKRSN+TAA N+VPEVTVF K
Sbjct: 61 DLERKETVWKLPLFHRLR-FDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 119
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 120 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 179
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 180 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 239
Query: 881 QGLRSGGPSRHQGSL 925
+GLRS G SRHQG L
Sbjct: 240 RGLRSVGASRHQGPL 254
>ref|XP_003119343.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 1 [Homo sapiens].
Length = 254
Score = 385 bits (989), Expect = e-107
Identities = 190/255 (74%), Positives = 205/255 (80%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG +THEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL +KETVW+LPLF + R FDPQ AL NIA KHNLNILIKRSN+TAA N+VPEVTVF K
Sbjct: 61 DLERKETVWKLPLFHRLR-FDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 119
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 120 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 179
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 180 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 239
Query: 881 QGLRSGGPSRHQGSL 925
+GLRS G SRHQG L
Sbjct: 240 RGLRSVGASRHQGPL 254
>ref|XP_003119313.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 3 [Homo sapiens].
Length = 254
Score = 385 bits (989), Expect = e-107
Identities = 190/255 (74%), Positives = 205/255 (80%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG +THEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL +KETVW+LPLF + R FDPQ AL NIA KHNLNILIKRSN+TAA N+VPEVTVF K
Sbjct: 61 DLERKETVWKLPLFHRLR-FDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 119
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 120 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 179
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 180 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 239
Query: 881 QGLRSGGPSRHQGSL 925
+GLRS G SRHQG L
Sbjct: 240 RGLRSVGASRHQGPL 254
>ref|XP_003119311.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 1 [Homo sapiens].
Length = 254
Score = 385 bits (989), Expect = e-107
Identities = 190/255 (74%), Positives = 205/255 (80%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG +THEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL +KETVW+LPLF + R FDPQ AL NIA KHNLNILIKRSN+TAA N+VPEVTVF K
Sbjct: 61 DLERKETVWKLPLFHRLR-FDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 119
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 120 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 179
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 180 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 239
Query: 881 QGLRSGGPSRHQGSL 925
+GLRS G SRHQG L
Sbjct: 240 RGLRSVGASRHQGPL 254
Database: RefSeq44_HP.fasta
Posted date: Nov 15, 2010 4:36 PM
Number of letters in database: 18,324,212
Number of sequences in database: 33,950
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 Sequences: 33950
Number of Hits to DB: 44,390,654
Number of extensions: 1085750
Number of successful extensions: 3491
Number of sequences better than 1.0e-05: 116
Number of HSP's gapped: 3419
Number of HSP's successfully gapped: 117
Length of query: 428
Length of database: 18,324,212
Length adjustment: 105
Effective length of query: 323
Effective length of database: 14,759,462
Effective search space: 4767306226
Effective search space used: 4767306226
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqMP_Rel44
BLASTX 2.2.24 [Aug-08-2010]
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= 20101001C-001170
(1285 letters)
Database: RefSeq44_MP.fasta
29,866 sequences; 15,452,059 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 340 1e-93
Alignment gi|NP_032232.2| histocompatibility 2, O region alpha locus [Mus... 232 4e-61
Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 217 1e-56
Alignment gi|XP_003085197.1| PREDICTED: h-2 class II histocompatibility a... 215 5e-56
Alignment gi|NP_034516.3| class II histocompatibility antigen, M alpha ch... 79 8e-15
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 71 2e-12
Alignment gi|NP_033865.2| beta-2-microglobulin precursor [Mus musculus]. 67 2e-11
Alignment gi|NP_034512.2| H-2 class II histocompatibility antigen, I-E be... 64 3e-10
Alignment gi|NP_001029150.1| histocompatibility 2, class II antigen E bet... 64 3e-10
Alignment gi|NP_996988.2| histocompatibility 2, class II antigen A, beta ... 64 3e-10
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha precursor [Mus
musculus].
Length = 256
Score = 340 bits (872), Expect = 1e-93
Identities = 166/256 (64%), Positives = 187/256 (73%), Gaps = 1/256 (0%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGED-IAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFY 337
M R L+ G LALT ++S CGGED I ADHV +YG++VYQS G G YT EFDGDE FY
Sbjct: 1 MPRSRALILGVLALTTMLSLCGGEDDIEADHVGTYGISVYQSPGDIGQYTFEFDGDELFY 60
Query: 338 VDLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFP 517
VDL KKETVW LP F + SFDPQG L+NIA KHNL +L KRSN+T A N+ P+ TVFP
Sbjct: 61 VDLDKKETVWMLPEFGQLASFDPQGGLQNIAVVKHNLGVLTKRSNSTPATNEAPQATVFP 120
Query: 518 KSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTF 697
KSPV+LGQPNTLIC VDNIFPPVINITWL+N SV +G ETSF D+SF K+SYLTF
Sbjct: 121 KSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFHKLSYLTF 180
Query: 698 LPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXX 877
+PSDDD YDCKVEHWGL++P+LKHWEPEIPAPMSELTET
Sbjct: 181 IPSDDDIYDCKVEHWGLEEPVLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTIFI 240
Query: 878 XQGLRSGGPSRHQGSL 925
QGLRSGG SRH G L
Sbjct: 241 IQGLRSGGTSRHPGPL 256
>ref|NP_032232.2| histocompatibility 2, O region alpha locus [Mus musculus].
Length = 250
Score = 232 bits (592), Expect = 4e-61
Identities = 111/207 (53%), Positives = 143/207 (69%)
Frame = +2
Query: 194 LALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQL 373
L + +S G I ADH+ SYG YQSY SG +THEFDG++ F VDL +E VW+L
Sbjct: 12 LTAMSFLSPRGVRAIKADHMGSYGPAFYQSYDASGQFTHEFDGEQIFSVDLKNEEVVWRL 71
Query: 374 PLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLGQPNTL 553
P F F D Q L +I+ K +L+IL++RSN T AV+ P VTV PK+ V LG+PN L
Sbjct: 72 PEFGDFAHSDFQSGLMSISMIKAHLDILVERSNRTRAVSVPPRVTVLPKTRVELGKPNVL 131
Query: 554 ICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKV 733
IC VD+IFPPVIN+TWL+N +T+G ++TSF S+ +H F K YLTF+PS +D YDCKV
Sbjct: 132 ICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHRFRKFHYLTFVPSAEDVYDCKV 191
Query: 734 EHWGLDKPLLKHWEPEIPAPMSELTET 814
EHWGLD PLL+HWEP++ P + ET
Sbjct: 192 EHWGLDTPLLQHWEPQVLTPPPDTIET 218
>ref|NP_034511.2| histocompatibility 2, class II antigen E alpha precursor [Mus
musculus].
Length = 255
Score = 217 bits (553), Expect = 1e-56
Identities = 100/172 (58%), Positives = 125/172 (72%)
Frame = +2
Query: 296 GYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNN 475
G + +FDGDE F+VD+ K ET+W+L F+KF SF+ QGAL NIA K NL+++ +RSNN
Sbjct: 45 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 104
Query: 476 TAAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLS 655
T N PEVTV +SPV LG+PN LIC +D PPV+N+TW +NG VTEG SET FL
Sbjct: 105 TPDANVAPEVTVLSRSPVNLGEPNILICFIDKFSPPVVNVTWFRNGRPVTEGVSETVFLP 164
Query: 656 KNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 811
++DH F K YLTFLPS DDFYDC+V+HWGL++PL KHWE E + E TE
Sbjct: 165 RDDHLFRKFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHWEFEEKTLLPETTE 216
>ref|XP_003085197.1| PREDICTED: h-2 class II histocompatibility antigen, E-K alpha
chain-like [Mus musculus].
Length = 276
Score = 215 bits (548), Expect = 5e-56
Identities = 104/208 (50%), Positives = 134/208 (64%)
Frame = +2
Query: 188 GALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKETVW 367
G L ++ G + A + Y G + +FDGDE F+VD+ K ET+W
Sbjct: 30 GPLCCVTMLKIHQGTNSAPEEHTIIQAEFYLLPDKRGEFMFDFDGDEIFHVDIEKSETIW 89
Query: 368 QLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLGQPN 547
+L F+KF SF+ QGAL NIA K NL+++ +RSNNT N PEVTV +SPV LG+PN
Sbjct: 90 RLEEFAKFASFEAQGALANIAVDKANLDVMKERSNNTPDANVAPEVTVLSRSPVNLGEPN 149
Query: 548 TLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDC 727
LIC +D PPV+N+TWL+NG VTEG SET FL ++DH F K +LTFLPS DDFYDC
Sbjct: 150 ILICFIDKFSPPVVNVTWLRNGRPVTEGVSETVFLPRDDHLFRKFHFLTFLPSTDDFYDC 209
Query: 728 KVEHWGLDKPLLKHWEPEIPAPMSELTE 811
+V+HWGL++PL KHWE E + E E
Sbjct: 210 EVDHWGLEEPLRKHWEFEEKTLLPETKE 237
>ref|NP_034516.3| class II histocompatibility antigen, M alpha chain precursor [Mus
musculus].
Length = 261
Score = 79.0 bits (193), Expect = 8e-15
Identities = 54/171 (31%), Positives = 78/171 (45%), Gaps = 5/171 (2%)
Frame = +2
Query: 314 FDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILI-----KRSNNT 478
+D DE F D + V +LP F+++ QG IA K +L+ K
Sbjct: 63 YDEDELFSFDFSQNTRVPRLPDFAEWAQ--GQGDASAIAFDKSFCEMLMREVSPKLEGQI 120
Query: 479 AAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSK 658
+P VF P+ G+PNTL+C + N+FPP + + W + V EG S TS +
Sbjct: 121 PVSRGLPVAEVFTLKPLEFGKPNTLVCFISNLFPPTLTVNWQLHSAPV-EGASPTSISAV 179
Query: 659 NDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 811
+ +F SYL F P D Y C V H + +W P+ P S+L E
Sbjct: 180 DGLTFQAFSYLNFTPEPFDLYSCTVTHEIDRYTAIAYWVPQNALP-SDLLE 229
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus].
Length = 271
Score = 70.9 bits (172), Expect = 2e-12
Identities = 35/99 (35%), Positives = 48/99 (48%)
Frame = +2
Query: 476 TAAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLS 655
T N PEVTV+P+ +L Q N L+C V +P I++ W +NG G T +
Sbjct: 116 TVERNVPPEVTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVR 175
Query: 656 KNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHW 772
D +F L +P D Y C VEH GL +P+ W
Sbjct: 176 NGDWTFQTTVMLEMIPELGDIYSCLVEHPGLLRPVSVAW 214
>ref|NP_033865.2| beta-2-microglobulin precursor [Mus musculus].
Length = 119
Score = 67.4 bits (163), Expect = 2e-11
Identities = 33/102 (32%), Positives = 57/102 (55%), Gaps = 1/102 (0%)
Frame = +2
Query: 482 AVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTE-GFSETSFLSK 658
A+ + P++ V+ + P G+PN L C+V PP I I LKNG + + S+ SF
Sbjct: 20 AIQKTPQIQVYSRHPPENGKPNILNCYVTQFHPPHIEIQMLKNGKKIPKVEMSDMSF--S 77
Query: 659 NDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEI 784
D SF +++ F P++ D Y C+V+H + +P +W+ ++
Sbjct: 78 KDWSFYILAHTEFTPTETDTYACRVKHASMAEPKTVYWDRDM 119
>ref|NP_034512.2| H-2 class II histocompatibility antigen, I-E beta chain precursor
[Mus musculus].
Length = 264
Score = 63.9 bits (154), Expect = 3e-10
Identities = 29/103 (28%), Positives = 48/103 (46%)
Frame = +2
Query: 497 PEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFL 676
P VTV+P L N L+C V + +P I + W +NG G T + D +F
Sbjct: 124 PTVTVYPTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQ 183
Query: 677 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 805
+ L +P + Y C+VEH L P+ W+ + + +++
Sbjct: 184 TLVMLETVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKM 226
>ref|NP_001029150.1| histocompatibility 2, class II antigen E beta2 [Mus musculus].
Length = 287
Score = 63.5 bits (153), Expect = 3e-10
Identities = 29/103 (28%), Positives = 47/103 (45%)
Frame = +2
Query: 497 PEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFL 676
P+VTV+P L N L+C V + +P I + W +NG G T + D ++
Sbjct: 125 PKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNRDWTYQ 184
Query: 677 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 805
+ L +P + Y C+VEH L P+ W + ++L
Sbjct: 185 TLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKL 227
>ref|NP_996988.2| histocompatibility 2, class II antigen A, beta 1 precursor [Mus
musculus].
Length = 265
Score = 63.5 bits (153), Expect = 3e-10
Identities = 30/103 (29%), Positives = 45/103 (43%)
Frame = +2
Query: 497 PEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFL 676
P V + L NTL+C V + +P I + W +NG T G S T + D +F
Sbjct: 125 PNVVISLSRTEALNHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGDWTFQ 184
Query: 677 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 805
+ L P + Y C VEH L P+ W + + S++
Sbjct: 185 VLVMLEMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKM 227
Database: RefSeq44_MP.fasta
Posted date: Nov 15, 2010 4:36 PM
Number of letters in database: 15,452,059
Number of sequences in database: 29,866
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 Sequences: 29866
Number of Hits to DB: 37,121,319
Number of extensions: 895227
Number of successful extensions: 2772
Number of sequences better than 1.0e-05: 24
Number of HSP's gapped: 2758
Number of HSP's successfully gapped: 24
Length of query: 428
Length of database: 15,452,059
Length adjustment: 104
Effective length of query: 324
Effective length of database: 12,345,995
Effective search space: 4000102380
Effective search space used: 4000102380
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqSP_Rel44
BLASTX 2.2.24 [Aug-08-2010]
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= 20101001C-001170
(1285 letters)
Database: RefSeq44_SP.fasta
20,576 sequences; 9,542,844 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001123696.1| SLA class II histocompatibility antigen, DQ ... 474 e-134
Alignment gi|NP_001107534.2| SLA class II histocompatibility antigen, DQ ... 446 e-125
Alignment gi|NP_001172072.1| MHC class II antigen [Sus scrofa]. 262 3e-70
Alignment gi|NP_001107178.1| MHC class II DR-alpha [Sus scrofa]. 226 2e-59
Alignment gi|NP_001107177.1| major histocompatibility complex, class II, ... 76 4e-14
Alignment gi|NP_001004039.1| SLA-DM alpha chain [Sus scrofa]. 76 4e-14
Alignment gi|XP_003121588.1| PREDICTED: beta-2-microglobulin-like isoform... 71 1e-12
Alignment gi|XP_003121587.1| PREDICTED: beta-2-microglobulin-like isoform... 71 1e-12
Alignment gi|XP_003121585.1| PREDICTED: beta-2-microglobulin-like isoform... 71 1e-12
Alignment gi|XP_003121584.1| PREDICTED: beta-2-microglobulin-like isoform... 71 1e-12
>ref|NP_001123696.1| SLA class II histocompatibility antigen, DQ haplotype D alpha chain
precursor [Sus scrofa].
Length = 255
Score = 474 bits (1220), Expect = e-134
Identities = 231/255 (90%), Positives = 231/255 (90%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV
Sbjct: 1 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL KKETVWQLPLFSKF SFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK
Sbjct: 61 DLEKKETVWQLPLFSKFTSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 120
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 180
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET
Sbjct: 181 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCALGLIVGLVGIVVGTVFII 240
Query: 881 QGLRSGGPSRHQGSL 925
QGLRSGGPSRHQGSL
Sbjct: 241 QGLRSGGPSRHQGSL 255
>ref|NP_001107534.2| SLA class II histocompatibility antigen, DQ haplotype C alpha chain
precursor [Sus scrofa].
Length = 254
Score = 446 bits (1146), Expect = e-125
Identities = 218/255 (85%), Positives = 225/255 (88%)
Frame = +2
Query: 161 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 340
MVPGRVLMWGALALT VMSACGGEDIAADHVASYGLNVYQSYGPSGY+THEFDGDEEFYV
Sbjct: 1 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 60
Query: 341 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 520
DL KKETVW+LPLFS+F SFDPQGALRNIAT KHNLNI+ KRSNNTAAVNQVPEVTVF K
Sbjct: 61 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 120
Query: 521 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 700
SPV+LGQPNTLICHVD+IFPPVINITWLKNGHSV +GFSETSFLSKNDHSFLKISYLTFL
Sbjct: 121 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 179
Query: 701 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 880
PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET
Sbjct: 180 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCALGLIVGLVGIVVGTVFII 239
Query: 881 QGLRSGGPSRHQGSL 925
QGL SGGPSRHQGSL
Sbjct: 240 QGLLSGGPSRHQGSL 254
>ref|NP_001172072.1| MHC class II antigen [Sus scrofa].
Length = 250
Score = 262 bits (669), Expect = 3e-70
Identities = 124/212 (58%), Positives = 153/212 (72%)
Frame = +2
Query: 179 LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKE 358
L+ G L ++S I ADH+ SYG YQSY SG +T++FDG++ F VDL K+E
Sbjct: 7 LVLGLHILMTLLSPQKAGAIKADHMGSYGPAFYQSYDGSGQFTYDFDGEQLFSVDLKKRE 66
Query: 359 TVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLG 538
VW+LP FS F FDPQ LR IA + +L++L++RSN+T A N P VTV PKSPV LG
Sbjct: 67 AVWRLPEFSNFADFDPQNGLRGIALIRAHLDVLVERSNHTRATNVPPRVTVLPKSPVALG 126
Query: 539 QPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDF 718
QPN LIC VDNIFPPVINITWL NG +VTEG ++TSF ++ DHSF K YLTF+PS DF
Sbjct: 127 QPNVLICIVDNIFPPVINITWLHNGQTVTEGVTQTSFYAQPDHSFRKFHYLTFVPSAGDF 186
Query: 719 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 814
YDCKVEHWGLD+PL HWEP++ P+ + TET
Sbjct: 187 YDCKVEHWGLDEPLFTHWEPQVTMPLPDTTET 218
>ref|NP_001107178.1| MHC class II DR-alpha [Sus scrofa].
Length = 252
Score = 226 bits (575), Expect = 2e-59
Identities = 112/217 (51%), Positives = 133/217 (61%)
Frame = +2
Query: 275 YQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNI 454
Y S SG + +FDGDE F+VD+ K+ETVW+L F F SF+ QGAL NIA K NL I
Sbjct: 36 YLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEI 95
Query: 455 LIKRSNNTAAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGF 634
LIKRSNNT N PEVTV PV LG+PN LIC +D PPV+N+TWL+NG VT G
Sbjct: 96 LIKRSNNTPNTNVPPEVTVLSDKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGV 155
Query: 635 SETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 814
SET FL + DH F K YL F+PS +D YDC+VEHWGLDKPLLKHWE E P+ E TE
Sbjct: 156 SETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWEFEAQTPLPETTEN 215
Query: 815 XXXXXXXXXXXXXXXXXXXXXXQGLRSGGPSRHQGSL 925
+G+R G + +G L
Sbjct: 216 TVCALGLIVALVGIIVGTVLIIKGVRKGNATERRGPL 252
>ref|NP_001107177.1| major histocompatibility complex, class II, DO alpha [Sus scrofa].
Length = 260
Score = 75.9 bits (185), Expect = 4e-14
Identities = 59/209 (28%), Positives = 90/209 (43%), Gaps = 11/209 (5%)
Frame = +2
Query: 218 ACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRS 397
A G D +H Y + Q P + +DGD+ F + + V +LP F+ +
Sbjct: 32 APGWRDELQNHTFQYTMYC-QDGNPEVGLSEVYDGDQLFSFNFSQNIRVPRLPEFADWAH 90
Query: 398 --------FDPQGALRNIATAKHNL---NILIKRSNNTAAVNQVPEVTVFPKSPVMLGQP 544
F +G R + L I + R +P VF P+ G+P
Sbjct: 91 QIEDTPAIFFDKGFCREMIEKVGPLFEGKIPVSRG--------LPIAEVFTLKPLEFGKP 142
Query: 545 NTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDFYD 724
NTL+C V N+FPP + +TW ++ + EG T + +D SF SYL F P+ D +
Sbjct: 143 NTLVCFVSNLFPPALTVTW-EHHSAPVEGIGPTFVSATDDLSFQAFSYLNFTPTPSDLFS 201
Query: 725 CKVEHWGLDKPLLKHWEPEIPAPMSELTE 811
C V H + +W P+ P S+L E
Sbjct: 202 CVVTHELDGYVAISYWVPQNALP-SDLLE 229
>ref|NP_001004039.1| SLA-DM alpha chain [Sus scrofa].
Length = 260
Score = 75.9 bits (185), Expect = 4e-14
Identities = 59/209 (28%), Positives = 90/209 (43%), Gaps = 11/209 (5%)
Frame = +2
Query: 218 ACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRS 397
A G D +H Y + Q P + +DGD+ F + + V +LP F+ +
Sbjct: 32 APGWRDELQNHTFQYTMYC-QDGNPEVGLSEVYDGDQLFSFNFSQNIRVPRLPEFADWAH 90
Query: 398 --------FDPQGALRNIATAKHNL---NILIKRSNNTAAVNQVPEVTVFPKSPVMLGQP 544
F +G R + L I + R +P VF P+ G+P
Sbjct: 91 QIEDTPAIFFDKGFCREMIEKVGPLFEGKIPVSRG--------LPIAEVFTLKPLEFGKP 142
Query: 545 NTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDFYD 724
NTL+C V N+FPP + +TW ++ + EG T + +D SF SYL F P+ D +
Sbjct: 143 NTLVCFVSNLFPPALTVTW-EHHSAPVEGIGPTFVSATDDLSFQAFSYLNFTPTPSDLFS 201
Query: 725 CKVEHWGLDKPLLKHWEPEIPAPMSELTE 811
C V H + +W P+ P S+L E
Sbjct: 202 CVVTHELDGYVAISYWVPQNALP-SDLLE 229
>ref|XP_003121588.1| PREDICTED: beta-2-microglobulin-like isoform 5 [Sus scrofa].
Length = 118
Score = 71.2 bits (173), Expect = 1e-12
Identities = 38/98 (38%), Positives = 53/98 (54%)
Frame = +2
Query: 482 AVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKN 661
AV + P+V V+ + P G+PN L C+V PP I I LKNG + S+ SF
Sbjct: 20 AVARPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SK 77
Query: 662 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 775
D SF + + F P+ D Y C+V+H LDKP + W+
Sbjct: 78 DWSFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 115
>ref|XP_003121587.1| PREDICTED: beta-2-microglobulin-like isoform 4 [Sus scrofa].
Length = 118
Score = 71.2 bits (173), Expect = 1e-12
Identities = 38/98 (38%), Positives = 53/98 (54%)
Frame = +2
Query: 482 AVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKN 661
AV + P+V V+ + P G+PN L C+V PP I I LKNG + S+ SF
Sbjct: 20 AVARPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SK 77
Query: 662 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 775
D SF + + F P+ D Y C+V+H LDKP + W+
Sbjct: 78 DWSFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 115
>ref|XP_003121585.1| PREDICTED: beta-2-microglobulin-like isoform 2 [Sus scrofa].
Length = 118
Score = 71.2 bits (173), Expect = 1e-12
Identities = 38/98 (38%), Positives = 53/98 (54%)
Frame = +2
Query: 482 AVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKN 661
AV + P+V V+ + P G+PN L C+V PP I I LKNG + S+ SF
Sbjct: 20 AVARPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SK 77
Query: 662 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 775
D SF + + F P+ D Y C+V+H LDKP + W+
Sbjct: 78 DWSFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 115
>ref|XP_003121584.1| PREDICTED: beta-2-microglobulin-like isoform 1 [Sus scrofa].
Length = 118
Score = 71.2 bits (173), Expect = 1e-12
Identities = 38/98 (38%), Positives = 53/98 (54%)
Frame = +2
Query: 482 AVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKN 661
AV + P+V V+ + P G+PN L C+V PP I I LKNG + S+ SF
Sbjct: 20 AVARPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SK 77
Query: 662 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 775
D SF + + F P+ D Y C+V+H LDKP + W+
Sbjct: 78 DWSFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 115
Database: RefSeq44_SP.fasta
Posted date: Nov 15, 2010 4:36 PM
Number of letters in database: 9,542,844
Number of sequences in database: 20,576
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 Sequences: 20576
Number of Hits to DB: 23,294,844
Number of extensions: 571818
Number of successful extensions: 1605
Number of sequences better than 1.0e-05: 30
Number of HSP's gapped: 1584
Number of HSP's successfully gapped: 30
Length of query: 428
Length of database: 9,542,844
Length adjustment: 101
Effective length of query: 327
Effective length of database: 7,464,668
Effective search space: 2440946436
Effective search space used: 2440946436
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)