Clone Information

[Other Clones] [Human Genome] [RefSeq] [UniGene] [Assembly]

Clone Name: ITT01_0086_H05

Library: ITT01 (Intestine)
Individual: LWD2, Crossbred pig ((Landrace x Large White) x Duroc, Western)

Nucleotide sequence: (length: 1,093) [FASTA format sequence] TCATTGCTCT ACAACTCCGA AGAGCAACAG CTGCCTCTGT TTAGCAAATT TAGAAGTTCT GACCCACAGG GTGCACTGAG GAACATAGCT ACGGCAAAAC ATAATTTGAA CATCCTGATT AAACGTTCCA ACAACACCGC GGCTGTCAAT CAGGTTCCTG AGGTGACTGT GTTTCCCAAG TCTCCAGTGA TGCTGGGTCA GCCCAACACC CTCATCTGTC ATGTGGACAA CATCTTTCCT CCTGTGATCA ACATCACGTG GTTGAAGAAC GGGCACTCTG TCACAGAAGG TTTTTCTGAG ACCAGCTTCC TCTCCAAAAA TGATCATTCC TTCCTCAAGA TCAGTTATCT CACCTTCCTC CCTTCTGATG ATGATTTTTA TGACTGCAAA GTGGAGCACT GGGGCCTGGA TAAGCCACTT CTGAAACACT GGGAACCTGA GATTCCAGCC CCCATGTCAG AGCTGACAGA GACAGTGGTC TGCGCCCTGG GATTGATCGT GGGCCTTGTG GGCATCGTGG TGGGCACTGT CTTCATCATT CAAGGCCTGC GCTCAGGTGG TCCCTCTAGA CACCAAGGGT CCTTGTGAGT CACACTCCAG AAGGGAAGGT GCACTGCCCG CCTACAAGAG CTGAAGAGTG GATGTGCTCA ACGACCTAGA ACTATTTTCT GGCCAAATTC ATCATATACC TTCTCTCTTC CTACATTCTT CTTCTCACCT CTTCTCTGGA ACTTAAGGTG CTGTGTCATC TCAGAATTCA TATGCCCTTG GAATCCTCTT CCTGACCTTC TAGGTTTTTT TTCTTTTCTC AGTTGTTACC TGTTATGGGA TCTCTGAGAT ATCCCACTCG GCTACCTGAT CCCTCAGTGA CCCTAAACTA ATATGTACAT GGAAACAATA AATCACTTCA TGAGGTTTTT GTACTGAATT CTTTCCTGTC TTTCATCTCA AGGCTGACTA GGACCATGGT CTCTTGCACT TCAGGCCCAT TTAATCTCAT TTCCCAGGTT ATGCTTCATG CCCAGTAACA CAGGAGAAGC ATGTATAGAC TGACAATAAA TATTTTGCCG TCTTAAAAAA AAAAAAAAAA AAA

Deduced amino acid sequence: (length: 132) [FASTA format sequence] MLGQPNTLIC HVDNIFPPVI NITWLKNGHS VTEGFSETSF LSKNDHSFLK ISYLTFLPSD DDFYDCKVEH WGLDKPLLKH WEPEIPAPMS ELTETVVCAL GLIVGLVGIV VGTVFIIQGL RSGGPSRHQG SL

SNP mapping information

SNP ID Rel. Chr. Location (cM)

BLAST on RefSeq (Human): TOP

Locus Definition Score E value FL
LOC100507718 PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1 chain-like isoform 3 [Homo sapiens]. 276 2e-74

HLA-DQA1 HLA class II histocompatibility antigen, DQ alpha 1 chain precursor [Homo sapiens]. 272 3e-73

LOC100509457 PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1 chain-like isoform 4 [Homo sapiens]. 228 7e-60

Locus	Definition	Score	E value
LOC100507718	PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1 chain-like isoform 3 [Homo sapiens].	276	2e-74
HLA-DQA1	HLA class II histocompatibility antigen, DQ alpha 1 chain precursor [Homo sapiens].	272	3e-73
LOC100509457	PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1 chain-like isoform 4 [Homo sapiens].	228	7e-60

BLAST on RefSeq (Mouse): TOP

Locus Definition Score E value FL
H2-Aa histocompatibility 2, class II antigen A, alpha precursor [Mus musculus]. 249 3e-66

H2-Ea-ps histocompatibility 2, class II antigen E alpha precursor [Mus musculus]. 183 2e-46

H2-Oa histocompatibility 2, O region alpha locus [Mus musculus]. 179 4e-45

H2-DMa class II histocompatibility antigen, M alpha chain precursor [Mus musculus]. 72.4 6e-13

H2-DMb2 histocompatibility 2, class II, locus Mb2 [Mus musculus]. 63.5 3e-10

Locus	Definition	Score	E value
H2-Aa	histocompatibility 2, class II antigen A, alpha precursor [Mus musculus].	249	3e-66
H2-Ea-ps	histocompatibility 2, class II antigen E alpha precursor [Mus musculus].	183	2e-46
H2-Oa	histocompatibility 2, O region alpha locus [Mus musculus].	179	4e-45
H2-DMa	class II histocompatibility antigen, M alpha chain precursor [Mus musculus].	72.4	6e-13
H2-DMb2	histocompatibility 2, class II, locus Mb2 [Mus musculus].	63.5	3e-10

BLAST on RefSeq (Dog): TOP

Locus Definition Score E value FL
HLA-DQA1 major histocompatibility complex, class II, DQ alpha [Canis lupus familiaris]. 275 7e-74

DLA-DRA MHC class II DR alpha chain [Canis lupus familiaris]. 186 3e-47

LOC474869 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]. 184 1e-46

HLA-DQB1 major histocompatibility complex, class II, DQ beta 1 [Canis lupus familiaris]. 68.2 1e-11

LOC607827 PREDICTED: similar to HLA class II histocompatibility antigen, DM beta chain precursor (MHC class II antigen DMB) [Canis familiaris]. 59.3 6e-09

Locus	Definition	Score	E value
HLA-DQA1	major histocompatibility complex, class II, DQ alpha [Canis lupus familiaris].	275	7e-74
DLA-DRA	MHC class II DR alpha chain [Canis lupus familiaris].	186	3e-47
LOC474869	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].	184	1e-46
HLA-DQB1	major histocompatibility complex, class II, DQ beta 1 [Canis lupus familiaris].	68.2	1e-11
LOC607827	PREDICTED: similar to HLA class II histocompatibility antigen, DM beta chain precursor (MHC class II antigen DMB) [Canis familiaris].	59.3	6e-09

BLAST on RefSeq (Cattle): TOP

Locus Definition Score E value FL
LOC100336394 PREDICTED: BOLA-DQA2 protein-like [Bos taurus]. 271 1e-72

HLA-DQA1 major histocompatibility complex, class II, DQ alpha 5 [Bos taurus]. 270 2e-72

BOLA-DQA1 major histocompatibility complex, class II, DQ alpha, type 1 [Bos taurus]. 266 2e-71

BOLA-DQA3 major histocompatibility complex, class II, DQ alpha, type 3 [Bos taurus]. 258 8e-69

LOC525727 PREDICTED: MHC class II antigen-like [Bos taurus]. 174 9e-44

Locus	Definition	Score	E value
LOC100336394	PREDICTED: BOLA-DQA2 protein-like [Bos taurus].	271	1e-72
HLA-DQA1	major histocompatibility complex, class II, DQ alpha 5 [Bos taurus].	270	2e-72
BOLA-DQA1	major histocompatibility complex, class II, DQ alpha, type 1 [Bos taurus].	266	2e-71
BOLA-DQA3	major histocompatibility complex, class II, DQ alpha, type 3 [Bos taurus].	258	8e-69
LOC525727	PREDICTED: MHC class II antigen-like [Bos taurus].	174	9e-44

BLAST on RefSeq (Pig): TOP

Locus Definition Score E value FL
SLA-DQA1 SLA class II histocompatibility antigen, DQ haplotype D alpha chain precursor [Sus scrofa]. 329 1e-90

SLA-DQA SLA class II histocompatibility antigen, DQ haplotype C alpha chain precursor [Sus scrofa]. 304 7e-83

SLA src-like-adapter [Sus scrofa]. 205 4e-53

SLA-DRA MHC class II DR-alpha [Sus scrofa]. 187 7e-48

LOC100513292 PREDICTED: DLA class II histocompatibility antigen, DR-1 beta chain-like [Sus scrofa]. 63.5 2e-10

Locus	Definition	Score	E value
SLA-DQA1	SLA class II histocompatibility antigen, DQ haplotype D alpha chain precursor [Sus scrofa].	329	1e-90
SLA-DQA	SLA class II histocompatibility antigen, DQ haplotype C alpha chain precursor [Sus scrofa].	304	7e-83
SLA	src-like-adapter [Sus scrofa].	205	4e-53
SLA-DRA	MHC class II DR-alpha [Sus scrofa].	187	7e-48
LOC100513292	PREDICTED: DLA class II histocompatibility antigen, DR-1 beta chain-like [Sus scrofa].	63.5	2e-10

Oligo-microarray probe: TOP

Probe ID Rel. Probe sequence
AGPOA4-06034 4.1 GCTTCATGCCCAGTAACACAGGAGAAGCATGTATAGACTGACAATAAATATTTTGCCGTC

Probe ID	Rel.	Probe sequence
AGPOA4-06034	4.1	GCTTCATGCCCAGTAACACAGGAGAAGCATGTATAGACTGACAATAAATATTTTGCCGTC

Assembly member: TOP

Release Contig/Singlet Clones Direction

20050322 20050322C-000196 6 fwd
20060611 20060611C-000164 6 fwd
20070806 20070806C-000022 6 fwd
20080515 20080515C-000329 397 fwd
20101001 20101001C-001170 425 fwd
20110601 20110601C-001518 452 fwd

Release	Contig/Singlet	Clones	Direction
20050322	20050322C-000196	6	fwd
20060611	20060611C-000164	6	fwd
20070806	20070806C-000022	6	fwd
20080515	20080515C-000329	397	fwd
20101001	20101001C-001170	425	fwd
20110601	20110601C-001518	452	fwd