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= 20060611S-011193
(1130 letters)
Database: RefSeqHP
39,411 sequences; 17,774,539 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_941298.1| PREDICTED: similar to HLA class II histocompati... 143 1e-37
Alignment gi|XP_941213.1| PREDICTED: similar to HLA class II histocompati... 143 2e-37
Alignment gi|XP_949965.1| PREDICTED: similar to HLA class II histocompati... 147 2e-35
Alignment gi|XP_949974.1| PREDICTED: similar to HLA class II histocompati... 147 2e-35
Alignment gi|XP_949973.1| PREDICTED: similar to HLA class II histocompati... 147 2e-35
Alignment gi|XP_949971.1| PREDICTED: similar to HLA class II histocompati... 147 2e-35
Alignment gi|XP_949969.1| PREDICTED: similar to HLA class II histocompati... 147 2e-35
Alignment gi|XP_945969.1| PREDICTED: similar to HLA class II histocompati... 147 2e-35
Alignment gi|NP_064440.1| major histocompatibility complex, class II, DQ ... 138 1e-32
Alignment gi|NP_002113.2| major histocompatibility complex, class II, DQ ... 135 5e-32
>ref|XP_941298.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
(HLA-DQA1*05011) (HLA-DQA1*0502) isoform 2 [Homo
sapiens]
Length = 158
Score = 143 bits (360), Expect(2) = 1e-37
Identities = 69/98 (70%), Positives = 78/98 (79%)
Frame = +1
Query: 142 LADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGAL 321
+ADHVASYG+N+YQSYGPSG YTHEFDGDE+FYVDL +KETVW LP+ +F FDPQ AL
Sbjct: 27 VADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYVDLGRKETVWCLPVLRQF-RFDPQFAL 85
Query: 322 RNIATLKHNLNIVTKRSNNTAAVNSMCSSFCLSLQNLP 435
NIA LKHNLN + KRSN+TAA N MC FC SL P
Sbjct: 86 TNIAVLKHNLNSLIKRSNSTAATNGMCQQFCPSLLIYP 123
Score = 32.3 bits (72), Expect(2) = 1e-37
Identities = 21/51 (41%), Positives = 25/51 (49%)
Frame = +2
Query: 428 IYPFISGPSPFFPRDRDPSPLYKTLSFPRSLQIFPWRLLDLHPLPSYPSRI 580
IYPFI P++ L FPR QIF W+LL + LPS S I
Sbjct: 121 IYPFI--------------PIFIIL-FPRGPQIFSWQLLKFYHLPSLKSHI 156
>ref|XP_941213.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
(HLA-DQA1*05011) (HLA-DQA1*0502) isoform 2 [Homo
sapiens]
Length = 158
Score = 143 bits (360), Expect(2) = 2e-37
Identities = 69/98 (70%), Positives = 78/98 (79%)
Frame = +1
Query: 142 LADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGAL 321
+ADHVASYG+N+YQSYGPSG YTHEFDGDE+FYVDL +KETVW LP+ +F FDPQ AL
Sbjct: 27 VADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYVDLGRKETVWCLPVLRQF-RFDPQFAL 85
Query: 322 RNIATLKHNLNIVTKRSNNTAAVNSMCSSFCLSLQNLP 435
NIA LKHNLN + KRSN+TAA N MC FC SL P
Sbjct: 86 TNIAVLKHNLNSLIKRSNSTAATNGMCQQFCPSLLIYP 123
Score = 31.6 bits (70), Expect(2) = 2e-37
Identities = 21/51 (41%), Positives = 24/51 (47%)
Frame = +2
Query: 428 IYPFISGPSPFFPRDRDPSPLYKTLSFPRSLQIFPWRLLDLHPLPSYPSRI 580
IYPFI P F + FPR QIF W+LL + LPS S I
Sbjct: 121 IYPFI----PSF-----------IILFPRGPQIFSWQLLKFYHLPSLKSHI 156
>ref|XP_949965.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 6
[Homo sapiens]
Length = 161
Score = 147 bits (371), Expect = 2e-35
Identities = 69/89 (77%), Positives = 77/89 (86%)
Frame = +1
Query: 142 LADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGAL 321
+ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYVDLE+KETVWQLPLF +F FDPQ AL
Sbjct: 27 VADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFAL 86
Query: 322 RNIATLKHNLNIVTKRSNNTAAVNSMCSS 408
NIA LKHNLNIV KRSN+TAA N + S
Sbjct: 87 TNIAVLKHNLNIVIKRSNSTAATNEVPES 115
>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 = 147 bits (370), Expect = 2e-35
Identities = 68/86 (79%), Positives = 76/86 (88%)
Frame = +1
Query: 142 LADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGAL 321
+ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYVDLE+KETVWQLPLF +F FDPQ AL
Sbjct: 27 VADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFAL 86
Query: 322 RNIATLKHNLNIVTKRSNNTAAVNSM 399
NIA LKHNLNIV KRSN+TAA N +
Sbjct: 87 TNIAVLKHNLNIVIKRSNSTAATNEV 112
>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 = 147 bits (370), Expect = 2e-35
Identities = 68/86 (79%), Positives = 76/86 (88%)
Frame = +1
Query: 142 LADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGAL 321
+ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYVDLE+KETVWQLPLF +F FDPQ AL
Sbjct: 27 VADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFAL 86
Query: 322 RNIATLKHNLNIVTKRSNNTAAVNSM 399
NIA LKHNLNIV KRSN+TAA N +
Sbjct: 87 TNIAVLKHNLNIVIKRSNSTAATNEV 112
>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 = 147 bits (370), Expect = 2e-35
Identities = 68/86 (79%), Positives = 76/86 (88%)
Frame = +1
Query: 142 LADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGAL 321
+ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYVDLE+KETVWQLPLF +F FDPQ AL
Sbjct: 27 VADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFAL 86
Query: 322 RNIATLKHNLNIVTKRSNNTAAVNSM 399
NIA LKHNLNIV KRSN+TAA N +
Sbjct: 87 TNIAVLKHNLNIVIKRSNSTAATNEV 112
>ref|XP_949969.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 7
[Homo sapiens]
Length = 208
Score = 147 bits (370), Expect = 2e-35
Identities = 68/86 (79%), Positives = 76/86 (88%)
Frame = +1
Query: 142 LADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGAL 321
+ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYVDLE+KETVWQLPLF +F FDPQ AL
Sbjct: 27 VADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFAL 86
Query: 322 RNIATLKHNLNIVTKRSNNTAAVNSM 399
NIA LKHNLNIV KRSN+TAA N +
Sbjct: 87 TNIAVLKHNLNIVIKRSNSTAATNEV 112
>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 = 147 bits (370), Expect = 2e-35
Identities = 68/86 (79%), Positives = 76/86 (88%)
Frame = +1
Query: 142 LADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGAL 321
+ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYVDLE+KETVWQLPLF +F FDPQ AL
Sbjct: 27 VADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFAL 86
Query: 322 RNIATLKHNLNIVTKRSNNTAAVNSM 399
NIA LKHNLNIV KRSN+TAA N +
Sbjct: 87 TNIAVLKHNLNIVIKRSNSTAATNEV 112
>ref|NP_064440.1| major histocompatibility complex, class II, DQ alpha 2 [Homo
sapiens]
Length = 255
Score = 138 bits (347), Expect = 1e-32
Identities = 63/86 (73%), Positives = 73/86 (84%)
Frame = +1
Query: 142 LADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGAL 321
+ADHVASYG+N YQS+GPSG YTHEFDGDEEFYVDLE KETVWQLP+FSKF SFDPQ AL
Sbjct: 27 VADHVASYGVNFYQSHGPSGQYTHEFDGDEEFYVDLETKETVWQLPMFSKFISFDPQSAL 86
Query: 322 RNIATLKHNLNIVTKRSNNTAAVNSM 399
RN+A KH L + ++SN+TAA N +
Sbjct: 87 RNMAVGKHTLEFMMRQSNSTAATNEV 112
>ref|NP_002113.2| major histocompatibility complex, class II, DQ alpha 1 precursor
[Homo sapiens]
Length = 255
Score = 135 bits (341), Expect = 5e-32
Identities = 62/86 (72%), Positives = 72/86 (83%)
Frame = +1
Query: 142 LADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGAL 321
+ADHVAS G+N+YQ YGPSG YTHEFDGDE+FYVDLE+KET W+ P FSKF FDPQGAL
Sbjct: 27 VADHVASCGVNLYQFYGPSGQYTHEFDGDEQFYVDLERKETAWRWPEFSKFGGFDPQGAL 86
Query: 322 RNIATLKHNLNIVTKRSNNTAAVNSM 399
RN+A KHNLNI+ KR N+TAA N +
Sbjct: 87 RNMAVAKHNLNIMIKRYNSTAATNEV 112
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: 44,339,460
Number of Sequences: 39411
Number of extensions: 1182613
Number of successful extensions: 3504
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 2990
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): 3489
length of database: 17,774,539
effective HSP length: 104
effective length of database: 13,675,795
effective search space used: 3719816240
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= 20060611S-011193
(1130 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... 152 8e-37
Alignment gi|XP_532104.2| PREDICTED: similar to HLA class II histocompati... 97 4e-20
Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 90 5e-18
Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 83 6e-16
>ref|NP_001011726.1| MHC class II DLA DQalpha chain [Canis familiaris]
Length = 255
Score = 152 bits (383), Expect = 8e-37
Identities = 74/108 (68%), Positives = 86/108 (79%)
Frame = +1
Query: 76 LVTLFNEVLFSPFVVHLHADPDLADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEK 255
L TL ++ SP + +ADHVA+YG+NVYQSYGPSG YTHEFDGDEEFYVDLEK
Sbjct: 9 LGTLILTIMMSPS----GGEEIVADHVANYGINVYQSYGPSGQYTHEFDGDEEFYVDLEK 64
Query: 256 KETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNSM 399
KETVW+LP+FS F SFDPQGALRN+A +K NLNI+TKRSN TAA N +
Sbjct: 65 KETVWRLPVFSTFRSFDPQGALRNLAIIKQNLNIMTKRSNQTAATNEV 112
>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 = 96.7 bits (239), Expect = 4e-20
Identities = 42/83 (50%), Positives = 59/83 (71%)
Frame = +1
Query: 145 ADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGALR 324
ADH+ SYG YQSYG SG + HEFDG++ F V+L+K++ VW+LP F FDPQ L
Sbjct: 14 ADHMGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLA 73
Query: 325 NIATLKHNLNIVTKRSNNTAAVN 393
+IA +K +L+++ +RSN T A+N
Sbjct: 74 SIAVIKAHLDVLVERSNRTRAIN 96
>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 = 89.7 bits (221), Expect = 5e-18
Identities = 39/80 (48%), Positives = 56/80 (70%)
Frame = +1
Query: 154 VASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIA 333
+ SYG YQSYG SG + HEFDG++ F V+L+K++ VW+LP F FDPQ L +IA
Sbjct: 1 MGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLASIA 60
Query: 334 TLKHNLNIVTKRSNNTAAVN 393
+K +L+++ +RSN T A+N
Sbjct: 61 VIKAHLDVLVERSNRTRAIN 80
>ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris]
Length = 254
Score = 82.8 bits (203), Expect = 6e-16
Identities = 45/89 (50%), Positives = 57/89 (64%)
Frame = +1
Query: 178 YQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNI 357
Y + PSG + +FDGDE F+VD+EKKETVW+L F +F SF+ QGAL NIA K NL+
Sbjct: 38 YLTPDPSGEFMFDFDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDT 97
Query: 358 VTKRSNNTAAVNSMCSSFCLSLQNLPVHI 444
+ KRSN+T N LS N PV +
Sbjct: 98 MIKRSNHTPNTNVPPEVTVLS--NTPVEL 124
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: 46,254,898
Number of Sequences: 33732
Number of extensions: 1205336
Number of successful extensions: 3368
Number of sequences better than 1.0e-05: 4
Number of HSP's better than 0.0 without gapping: 2967
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): 3363
length of database: 19,266,565
effective HSP length: 105
effective length of database: 15,724,705
effective search space used: 4261395055
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= 20060611S-011193
(1130 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... 122 7e-28
Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 88 1e-17
Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 79 1e-14
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus]
Length = 256
Score = 122 bits (306), Expect = 7e-28
Identities = 56/83 (67%), Positives = 66/83 (79%)
Frame = +1
Query: 145 ADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGALR 324
ADHV +YG++VYQS G G YT EFDGDE FYVDL+KKETVW LP F + SFDPQG L+
Sbjct: 29 ADHVGTYGISVYQSPGDIGQYTFEFDGDELFYVDLDKKETVWMLPEFGQLASFDPQGGLQ 88
Query: 325 NIATLKHNLNIVTKRSNNTAAVN 393
NIA +KHNL ++TKRSN+T A N
Sbjct: 89 NIAVVKHNLGVLTKRSNSTPATN 111
>ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus]
Length = 250
Score = 88.2 bits (217), Expect = 1e-17
Identities = 42/83 (50%), Positives = 57/83 (68%)
Frame = +1
Query: 145 ADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGALR 324
ADH+ SYG YQSY SG +THEFDG++ F VDL+ +E VW+LP F F D Q L
Sbjct: 28 ADHMGSYGPAFYQSYDASGQFTHEFDGEQIFSVDLKNEEVVWRLPEFGDFAHSDFQSGLM 87
Query: 325 NIATLKHNLNIVTKRSNNTAAVN 393
+I+ +K +L+I+ +RSN T AV+
Sbjct: 88 SISMIKAHLDILVERSNRTRAVS 110
>ref|NP_034511.2| histocompatibility 2, class II antigen E alpha [Mus musculus]
Length = 255
Score = 78.6 bits (192), Expect = 1e-14
Identities = 36/65 (55%), Positives = 48/65 (73%)
Frame = +1
Query: 199 GYYTHEFDGDEEFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIATLKHNLNIVTKRSNN 378
G + +FDGDE F+VD+EK ET+W+L F+KF SF+ QGAL NIA K NL+++ +RSNN
Sbjct: 45 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 104
Query: 379 TAAVN 393
T N
Sbjct: 105 TPDAN 109
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: 52,796,445
Number of Sequences: 45328
Number of extensions: 1373495
Number of successful extensions: 4040
Number of sequences better than 1.0e-05: 3
Number of HSP's better than 0.0 without gapping: 3477
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): 4036
length of database: 21,768,885
effective HSP length: 105
effective length of database: 17,009,445
effective search space used: 4609559595
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)