LOCUS       NM_001008831            1145 bp    mRNA    linear   ROD 30-JUL-2024
DEFINITION  Rattus norvegicus RT1 class II, locus Ba (RT1-Ba), mRNA.
ACCESSION   NM_001008831
VERSION     NM_001008831.3
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 1145)
  AUTHORS   Kozuka,R., Enomoto,M., Sato-Matsubara,M., Yoshida,K., Motoyama,H.,
            Hagihara,A., Fujii,H., Uchida-Kobayashi,S., Morikawa,H., Tamori,A.,
            Kawada,N. and Murakami,Y.
  TITLE     Association between HLA-DQA1/DRB1 polymorphism and development of
            hepatocellular carcinoma during entecavir treatment
  JOURNAL   J Gastroenterol Hepatol 34 (5), 937-946 (2019)
   PUBMED   30160782
REFERENCE   2  (bases 1 to 1145)
  AUTHORS   Karra,V.K., Chowdhury,S.J., Ruttala,R., Gumma,P.K., Polipalli,S.K.,
            Chakravarti,A. and Kar,P.
  TITLE     HLA-DQA1 & DQB1 variants associated with hepatitis B virus-related
            chronic hepatitis, cirrhosis & hepatocellular carcinoma
  JOURNAL   Indian J Med Res 147 (6), 573-580 (2018)
   PUBMED   30168489
REFERENCE   3  (bases 1 to 1145)
  AUTHORS   Shen,J., Shi,S. and Lai,Z.
  TITLE     Identification of HLA-DQA1 as a Susceptibility Gene for Spinal
            Tuberculosis by Exome Sequencing
  JOURNAL   Med Sci Monit 24, 3442-3449 (2018)
   PUBMED   29795056
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1145)
  AUTHORS   Ishibashi,M., Yamaguchi,H., Hirotani,Y., Sakurada,A., Endo,T.,
            Sugitani,M., Takayama,T., Makishima,M. and Esumi,M.
  TITLE     Contradictory intrahepatic immune responses activated in high-load
            hepatitis C virus livers compared with low-load livers
  JOURNAL   Arch Virol 163 (4), 855-865 (2018)
   PUBMED   29248968
REFERENCE   5  (bases 1 to 1145)
  AUTHORS   Gray,L.A., D'Antoine,H.A., Tong,S.Y.C., McKinnon,M., Bessarab,D.,
            Brown,N., Remenyi,B., Steer,A., Syn,G., Blackwell,J.M., Inouye,M.
            and Carapetis,J.R.
  TITLE     Genome-Wide Analysis of Genetic Risk Factors for Rheumatic Heart
            Disease in Aboriginal Australians Provides Support for Pathogenic
            Molecular Mimicry
  JOURNAL   J Infect Dis 216 (11), 1460-1470 (2017)
   PUBMED   29029143
REFERENCE   6  (bases 1 to 1145)
  AUTHORS   Syha,J., Henkes,W. and Reske,K.
  TITLE     Complete cDNA sequence coding for the MHC class II RT1.B alpha
            chain of the Lewis rat
  JOURNAL   Nucleic Acids Res 17 (10), 3985 (1989)
   PUBMED   2499874
REFERENCE   7  (bases 1 to 1145)
  AUTHORS   Henkes,W. and Reske,K.
  TITLE     Translation in Xenopus laevis oocytes of hybrid selected LEW rat
            RT1.B alpha- and beta-chain transcripts results in serologically
            discrete class II polypeptide chain complexes
  JOURNAL   Mol Immunol 26 (2), 171-179 (1989)
   PUBMED   2465490
REFERENCE   8  (bases 1 to 1145)
  AUTHORS   Barran,P.A. and McMaster,W.R.
  TITLE     DNA sequence analysis of the rat RT1.B alpha gene
  JOURNAL   Immunogenetics 26 (1-2), 56-62 (1987)
   PUBMED   3610254
REFERENCE   9  (bases 1 to 1145)
  AUTHORS   Wallis,A.E. and McMaster,W.R.
  TITLE     Sequence of a cDNA coding for a rat class II A alpha chain:
            extensive DNA and protein sequence identity to H-2 A alpha and
            HLA-DC1 alpha chains
  JOURNAL   Immunogenetics 19 (1), 53-62 (1984)
   PUBMED   6319276
REFERENCE   10 (bases 1 to 1145)
  AUTHORS   McMaster,W.R.
  TITLE     Purification and molecular cloning of rat Ia antigens
  JOURNAL   Methods Enzymol 108, 558-581 (1984)
   PUBMED   6084802
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BX883043.1 and BC086448.1.
            
            On Sep 18, 2009 this sequence version replaced NM_001008831.2.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: FQ225365.1, FQ233598.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5756307, SAMEA5760383
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-50                BX883043.1         136829-136878       c
            51-1145             BC086448.1         1-1095
FEATURES             Location/Qualifiers
     source          1..1145
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="20"
                     /map="20p12"
     gene            1..1145
                     /gene="RT1-Ba"
                     /gene_synonym="BA1"
                     /note="RT1 class II, locus Ba"
                     /db_xref="GeneID:309621"
                     /db_xref="RGD:1595867"
     exon            1..147
                     /gene="RT1-Ba"
                     /gene_synonym="BA1"
                     /inference="alignment:Splign:2.1.0"
     CDS             63..830
                     /gene="RT1-Ba"
                     /gene_synonym="BA1"
                     /note="RT1 class II antigen, Ba chain; Rano class II
                     histocompatibility antigen, B alpha chain; activated B
                     cell RT1Bl alpha chain; MHC class II antigen RT1.B alpha
                     chain; RT1-B alpha; MHC class I antigen"
                     /codon_start=1
                     /product="rano class II histocompatibility antigen, B
                     alpha chain precursor"
                     /protein_id="NP_001008831.1"
                     /db_xref="GeneID:309621"
                     /db_xref="RGD:1595867"
                     /translation="MPLSRALILGVLALTTMLSPCGGQDDIEADHVAAYGINMYQYYE
                     SRGQYTHEFDGDEEFYVDLDKKETIWRIPEFGQLTSFDPQGGLQEIATAKYNLEILMK
                     SNSTPATNKVPEATVFSKSPVLLGQPNTLICFVDNIFPPAINITWLRNSKPVTEGTFE
                     TSFLSNPDHSFHKMAYLTFIPSNDDIYDCKVEHWGLDEPVLKHWEPEIPAPMSELTET
                     VVCALGLSVGLVGIVVGTIFIIQGLRSGGPSRHPGPL"
     exon            148..393
                     /gene="RT1-Ba"
                     /gene_synonym="BA1"
                     /inference="alignment:Splign:2.1.0"
     exon            394..675
                     /gene="RT1-Ba"
                     /gene_synonym="BA1"
                     /inference="alignment:Splign:2.1.0"
     exon            676..850
                     /gene="RT1-Ba"
                     /gene_synonym="BA1"
                     /inference="alignment:Splign:2.1.0"
     exon            851..1119
                     /gene="RT1-Ba"
                     /gene_synonym="BA1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ggatcctcac aatctcttga agactcagga gagcagctac agagaccacc cagagaacag
       61 agatgccgct cagcagagct ctgattttgg gggtcctcgc cctgaccacc atgctcagcc
      121 cctgtggagg tcaagacgac attgaggccg accacgtagc cgcctatggt ataaatatgt
      181 atcagtatta tgaatccaga ggccagtaca cacatgaatt tgatggtgac gaggaattct
      241 atgtggactt ggataagaag gagaccatct ggaggatccc cgagtttgga caactgacaa
      301 gctttgaccc ccaaggtgga cttcaagaga tagctacagc aaaatacaat ttggaaatcc
      361 tgatgaagtc aaattcaacc ccagctacca acaaggttcc tgaggcgacc gtgttttcca
      421 agtcccctgt gctgctgggt cagcccaaca ccctcatctg ctttgtagac aacatctttc
      481 ctcctgcgat caatatcacg tggttgagaa acagcaagcc agtcacagaa ggcacttttg
      541 agaccagctt cctctccaac cctgaccatt ccttccacaa gatggcttac ctcaccttca
      601 tcccttctaa cgatgacatt tatgactgca aggtggagca ctggggcctc gacgagccgg
      661 ttctaaaaca ctgggaacct gagattccag cccccatgtc agagctgaca gagactgtgg
      721 tctgtgccct ggggttgtct gtgggcctcg tgggcatcgt ggtgggcacc atcttcatca
      781 ttcaaggcct gcggtcaggt ggcccctcca gacacccagg gcccttgtga gtcccaccct
      841 gggaaagaag gtgcgtggct ctctacaggg aagatgtagt gtgtggggtg acctcgcaca
      901 gtgtgttttc tggcccaatt catcgtgttc tttctcttct cctggtgtct cccatcttgc
      961 tcttcccttg gccccgaggc tgtcccatct catgactcac atgcccttgg aattctcctc
     1021 tgatctgagt ttcatttttg gcatcttcca agtcgaatct actatagatt ccgagaccct
     1081 gattaatgct ccaccaaacc aataaacctc ttataagtta aaaaaaaaaa aaaaaaaaaa
     1141 aaaaa
//
