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EBI Dbfetch

ID   BX927131; SV 1; linear; genomic DNA; STD; HUM; 2521 BP.
XX
AC   BX927131;
XX
DT   20-JAN-2004 (Rel. 78, Created)
DT   13-JAN-2009 (Rel. 99, Last updated, Version 10)
XX
DE   Human DNA sequence from clone XX-BSS390M22_256O6 on chromosome 6 Contains
DE   the 3' end of the HLA-DQA2 gene for major histocompatibility complex class
DE   II DQ alpha 2.
XX
KW   HLA-DQA2; HTG.
XX
OS   Homo sapiens (human)
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC   Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae;
OC   Homo.
XX
RN   [1]
RP   1-2521
RA   Palmer S.;
RT   ;
RL   Submitted (09-JAN-2009) to the INSDC.
RL   Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, CB10 1SA, UK.
RL   E-mail enquiries: vega@sanger.ac.uk Clone requests: Geneservice
RL   (http://www.geneservice.co.uk/) and BACPAC Resources
RL   (http://bacpac.chori.org/)
XX
DR   MD5; 68a338035a6f39170df9898d5e589e5d.
DR   ENA-CON; GL000256.
DR   Ensembl-Gn; ENSG00000204276; homo_sapiens.
DR   Ensembl-Gn; ENSG00000206301; homo_sapiens.
DR   Ensembl-Gn; ENSG00000223793; homo_sapiens.
DR   Ensembl-Gn; ENSG00000225103; homo_sapiens.
DR   Ensembl-Gn; ENSG00000231526; homo_sapiens.
DR   Ensembl-Gn; ENSG00000231823; homo_sapiens.
DR   Ensembl-Gn; ENSG00000233192; homo_sapiens.
DR   Ensembl-Gn; ENSG00000237541; homo_sapiens.
DR   Ensembl-Scaffolds; BX927131.1:1-2521; homo_sapiens.
DR   Ensembl-Tr; ENST00000241802; homo_sapiens.
DR   Ensembl-Tr; ENST00000374940; homo_sapiens.
DR   Ensembl-Tr; ENST00000415898; homo_sapiens.
DR   Ensembl-Tr; ENST00000443184; homo_sapiens.
DR   Ensembl-Tr; ENST00000446482; homo_sapiens.
DR   Ensembl-Tr; ENST00000447735; homo_sapiens.
DR   Ensembl-Tr; ENST00000449560; homo_sapiens.
DR   Ensembl-Tr; ENST00000453672; homo_sapiens.
DR   Ensembl-Tr; ENST00000546801; homo_sapiens.
DR   Ensembl-Tr; ENST00000551533; homo_sapiens.
XX
CC   -------------- Genome Center
CC   Center: Wellcome Trust Sanger Institute
CC   Center code: SC
CC   Web site: http://www.sanger.ac.uk
CC   Contact: vega@sanger.ac.uk
CC   --------------
CC   
CC   This sequence was finished as follows unless otherwise noted: all regions
CC   were either double-stranded or sequenced with an alternate chemistry or
CC   covered by high quality data (i.e., phred quality >= 30); an attempt was
CC   made to resolve all sequencing problems, such as compressions and repeats;
CC   all regions were covered by at least one subclone; and the assembly was
CC   confirmed by restriction digest, except on the rare occasion of the clone
CC   being a YAC.
CC   
CC   The following abbreviations are used to associate primary accession
CC   numbers given in the feature table with their source databases:
CC   Em:, EMBL; Sw:, SWISSPROT; Tr:, TREMBL; Wp:, WORMPEP;
CC   Information on the WORMPEP database can be found at
CC   http://www.sanger.ac.uk/Projects/C_elegans/wormpep
CC   
CC   This sequence was generated from part of bacterial clone contigs
CC   constructed by the MHC Haplotype Consortium and collaborators.
CC   Further information can be found at
CC   http://www.sanger.ac.uk/HGP/Chr6/MHC
CC   
CC   IMPORTANT: This sequence is not the entire insert of clone
CC   XX-BSS390M22_256O6. It may be shorter because we sequence overlapping
CC   sections only once, except for a short overlap.
CC   
CC   During sequence assembly data is compared from overlapping clones. Where
CC   differences are found these are annotated as variations together with a
CC   note of the overlapping clone name. Note that the variation annotation may
CC   not be found in the sequence submission corresponding to the overlapping
CC   clone, as we submit sequences with only a small overlap.
CC   
CC   The true left end of clone DASS-256O6 is at 2422 in this sequence.
CC   The true right end of clone DASS-390M22 is at 100 in this sequence.
XX
FH   Key             Location/Qualifiers
FH
FT   source          1..2521
FT                   /organism="Homo sapiens"
FT                   /chromosome="6"
FT                   /mol_type="genomic DNA"
FT                   /clone="XX-BSS390M22_256O6"
FT                   /db_xref="taxon:9606"
FT   misc_feature    101..2521
FT                   /note="annotated region of clone"
FT   mRNA            join(BX248406.4:120914..121097,BX248406.4:124731..124787,
FT                   101..292,676..957,1125..1299,1467..2097)
FT                   /gene="HLA-DQA2"
FT                   /locus_tag="XX-BSS390M22_256O6.1-001"
FT                   /product="major histocompatibility complex, class II, DQ
FT                   alpha 2"
FT                   /note="match: ESTs: Em:AA381553.1 Em:AV714394.1
FT                   Em:BG759026.1"
FT                   /note="match: cDNAs: Em:M26041.1 Em:M33906.1"
FT   CDS             join(BX248406.4:121016..121097,BX248406.4:124731..124787,
FT                   101..292,676..957,1125..1279)
FT                   /gene="HLA-DQA2"
FT                   /locus_tag="XX-BSS390M22_256O6.1-001"
FT                   /standard_name="OTTHUMP00000178590"
FT                   /product="major histocompatibility complex, class II, DQ
FT                   alpha 2"
FT                   /note="match: proteins: Sw:P01906"
FT                   /db_xref="GOA:P01906"
FT                   /db_xref="HGNC:HGNC:4943"
FT                   /db_xref="InterPro:IPR001003"
FT                   /db_xref="InterPro:IPR003006"
FT                   /db_xref="InterPro:IPR003597"
FT                   /db_xref="InterPro:IPR007110"
FT                   /db_xref="InterPro:IPR011162"
FT                   /db_xref="InterPro:IPR013783"
FT                   /db_xref="InterPro:IPR014745"
FT                   /db_xref="UniProtKB/Swiss-Prot:P01906"
FT                   /protein_id="CAM26196.1"
FT                   /translation="MILNKALLLGALALTAVMSPCGGEDIVADHVASYGVNFYQSHGPS
FT                   GQYTHEFDGDEEFYVDLETKETVWQLPMFSKFISFDPQSALRNMAVGKHTLEFMMGQSN
FT                   STAATNEVPEVTVFSKFPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSF
FT                   LSKSDHSFFKISYLTFLPSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETLVCA
FT                   LGLSVGLMGIVVGTVFIIQGLRSVGASRHQGLL"
FT   misc_feature    1050..1056
FT                   /note="Sequence from uni-directional dGTP big dye
FT                   terminator reads only"
FT   misc_feature    1475..2230
FT                   /note="Sequence from overlapping clone DASS-395E12
FT                   (BX927090)"
FT   polyA_signal    1759..1764
FT   polyA_site      1772
FT   polyA_signal    2064..2069
FT   polyA_site      2101
FT   misc_feature    2322
FT                   /note="Clone_left_end: DASS-256O6"
XX
SQ   Sequence 2521 BP; 670 A; 628 C; 517 G; 706 T; 0 other;
     ctccctgtgt tccaccctcc tgcttgtcac cttcactcgt cagctgacca tgttgcctcc        60
     tatggtgtga acttctacca gtctcacggt ccctctggcc agtacaccca tgaatttgat       120
     ggagacgagg agttctatgt ggacctggag acgaaagaga ctgtctggca gttgcctatg       180
     tttagcaaat ttataagttt tgacccgcag agtgcactga gaaatatggc tgtgggaaaa       240
     cacaccttgg aattcatgat gggacagtcc aactctaccg ctgccaccaa tggtacgtgt       300
     ccaccattcc gcctctcttt actgaaacta atctttcata ccaagtttta ctcccttctt       360
     ctcaagagat ttccagatct tctcatggta attgctgaaa ttttatcatc tcccatctct       420
     aaaatcacat attcccatgt aatacaaggg tctttccatt atgtattaat tcctacttta       480
     ttaaacatgc ccacagagag aagggcacag gaataaagca gaggcaatgt gtcgttgctc       540
     ccaagcagaa ggtaaataag acctctttga ctatcaggtg gtgaaatgct ggtaggaggg       600
     ctcttccagg atgtaatgca gaagctcatg gcagagctat tcacacttca catcagtgct       660
     gtttcctcac cacagaggtt cctgaggtca cagtgttttc caagtttcct gtgacgctgg       720
     gtcagcccaa caccctcatc tgtcttgtgg acaacatctt tcctcctgtg gtcaacatca       780
     cctggctgag caatgggcac tcagtcacag aaggtgtttc tgagaccagc ttcctctcca       840
     agagtgatca ttccttcttc aagatcagtt acctcacctt cctcccttct gctgatgaga       900
     tttatgactg caaggtggag cactggggcc tggacgagcc tcttctgaaa cactggggta       960
     aggatgagtt ccaccacttc atgggtttct aataatagac ttcactcttc tccctaagcc      1020
     tggggccttg agtcttgcag agccagccct ccaccccatc ccatcccaca cacatgcaca      1080
     tgagcacact gcacattctg acctcaacag ctccactttc acagagcctg agattccagc      1140
     ccctatgtca gagctcacag agactttggt ctgcgccctg gggttgtctg tgggcctcat      1200
     gggcattgtg gtgggcactg tcttcatcat ccaaggcctg cgttcagttg gtgcttccag      1260
     acaccaaggg ctcttatgaa tcccatcctg aaaaggaagg taagattgag atttgttgga      1320
     gctgaaacct cagtatgaga gggaggaaag tgggaggggg ttgtggacat gaatgtggtt      1380
     gaaagttgta ggcgaattgg gaagtggcat gatgatcaca caggaggccc ctcagaccca      1440
     tcgatctcat gtctgtcctg ttgcaggtgc atcaccatct acaggagaag aagaatggac      1500
     ttgctaaatg acctagcact attctctggc ctgatttatc atatcccttt tctcctccaa      1560
     atgtttcttc tctcacctct tctctgggac ttaaggtgct atattccctc agagctcaca      1620
     aatgcctttc aattctttcc ctgacctcct ttcctgaatt tttttatttt ctcaaatgtt      1680
     acctactaag ggatgcctgg gtaagccact cagctaccta attcctcaat gacctttatc      1740
     taaaatctcc atggaagcaa taaattccct tttgatgcct ctattgaatt tttcccatct      1800
     ttcatctcag ggctgactga gagcataact tagaatgggc gactcttatg ttttaggcca      1860
     atttcatatc attccccaga tcatatttca agtccagtaa cacaggagca accaagtaca      1920
     gtgtatcctg ataatttgtt gatttcttaa ctggtgttaa tatttctttc ttccttttgt      1980
     tcctaccctt ggccactgcc agccacccct caattcaggt accaacgaac cctctgccct      2040
     tggctcagaa tggttatagc agaaatacaa aaaaaaaaaa aaaagtctgt actaatttca      2100
     atatggctct taaaaggaat gacagagaaa taggatacaa gaattttgaa tctcaaaagt      2160
     tatcaaaagt aaaaaatttt gttaccaaaa gtcaaactgc attctcaaaa ctttaaattt      2220
     gtgaagaatg acaacagtag aagctttcct ctccccttct caccttgagg agataaaaat      2280
     tctctaggca ggaaaagaaa tggaagccag ttagaaaaac attgaaataa ggccaggcac      2340
     ggtggctcac acctataatc ccaacacttt gggaggccaa agtgggcaga tcacttgtgg      2400
     tcaggacttc gagaccagcc tggccaacgt ggttacaccc tgtctctact aaaaatacaa      2460
     aaattagctg ggcatggtgc tgggcacctg taatcccagc tactcaggag gctgaagcag      2520
     g                                                                      2521
//


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