LOCUS       NM_001004084            1517 bp    mRNA    linear   ROD 01-APR-2024
DEFINITION  Rattus norvegicus RT1 class II, locus Bb (RT1-Bb), mRNA.
ACCESSION   NM_001004084 XM_228006
VERSION     NM_001004084.3
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 1517)
  AUTHORS   Lee,H.S., Kim,K., Jung,S., Hong,M., Kim,B.M., Yoo,D.S., Moon,J.W.,
            Baek,J., Hwang,S.W., Park,S.H., Yang,S.K., Han,B., Song,K. and
            Ye,B.D.
  TITLE     Effects of smoking on the association of human leukocyte antigen
            with ulcerative colitis
  JOURNAL   J Gastroenterol Hepatol 34 (10), 1777-1783 (2019)
   PUBMED   31038770
REFERENCE   2  (bases 1 to 1517)
  AUTHORS   Wang,K., Yu,X., Jiang,H., Huang,J., Wang,H., Jiang,H., Wei,S. and
            Liu,L.
  TITLE     Genome-wide expression profiling-based copy number variations and
            colorectal cancer risk in Chinese
  JOURNAL   Mol Carcinog 58 (7), 1324-1333 (2019)
   PUBMED   31001878
REFERENCE   3  (bases 1 to 1517)
  AUTHORS   Vackova,Z., Niebisch,S., Triantafyllou,T., Becker,J., Hess,T.,
            Kreuser,N., Kanoni,S., Deloukas,P., Schuller,V., Heinrichs,S.K.,
            Thieme,R., Nothen,M.M., Knapp,M., Spicak,J., Gockel,I.,
            Schumacher,J., Theodorou,D. and Martinek,J.
  TITLE     First genotype-phenotype study reveals HLA-DQbeta1 insertion
            heterogeneity in high-resolution manometry achalasia subtypes
  JOURNAL   United European Gastroenterol J 7 (1), 45-51 (2019)
   PUBMED   30788115
REFERENCE   4  (bases 1 to 1517)
  AUTHORS   Bajer,L., Slavcev,A., Macinga,P., Sticova,E., Brezina,J., Roder,M.,
            Janousek,R., Trunecka,P., Spicak,J. and Drastich,P.
  TITLE     Risk of recurrence of primary sclerosing cholangitis after liver
            transplantation is associated with de novo inflammatory bowel
            disease
  JOURNAL   World J Gastroenterol 24 (43), 4939-4949 (2018)
   PUBMED   30487703
REFERENCE   5  (bases 1 to 1517)
  AUTHORS   Furuzawa-Carballeda,J., Zuniga,J., Hernandez-Zaragoza,D.I.,
            Barquera,R., Marques-Garcia,E., Jimenez-Alvarez,L.,
            Cruz-Lagunas,A., Ramirez,G., Regino,N.E., Espinosa-Soto,R.,
            Yunis,E.J., Romero-Hernandez,F., Azamar-Llamas,D., Coss-Adame,E.,
            Valdovinos,M.A., Torres-Landa,S., Palacios-Ramirez,A., Brena,B.,
            Alejandro-Medrano,E., Hernandez-Avila,A., Granados,J. and
            Torres-Villalobos,G.
  TITLE     An original Eurasian haplotype, HLA-DRB1*14:54-DQB1*05:03,
            influences the susceptibility to idiopathic achalasia
  JOURNAL   PLoS One 13 (8), e0201676 (2018)
   PUBMED   30092016
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1517)
  AUTHORS   Miki,N., Hatano,M., Wakita,K., Imoto,S., Nishikawa,S., Nishikawa,S.
            and Tokuhisa,T.
  TITLE     Role of I-A molecules in early stages of B cell maturation
  JOURNAL   J Immunol 149 (3), 801-807 (1992)
   PUBMED   1378867
REFERENCE   7  (bases 1 to 1517)
  AUTHORS   Melin-Aldana,H., Giannini,E.H., Taylor,J., Lovell,D.J.,
            Levinson,J.E., Passo,M.H., Ginsberg,J., Burke,M.J. and Glass,D.N.
  TITLE     Human leukocyte antigen-DRB1*1104 in the chronic iridocyclitis of
            pauciarticular juvenile rheumatoid arthritis
  JOURNAL   J Pediatr 121 (1), 56-60 (1992)
   PUBMED   1625093
REFERENCE   8  (bases 1 to 1517)
  AUTHORS   Dalchau,R., Fangmann,J. and Fabre,J.W.
  TITLE     Allorecognition of isolated, denatured chains of class I and class
            II major histocompatibility complex molecules. Evidence for an
            important role for indirect allorecognition in transplantation
  JOURNAL   Eur J Immunol 22 (3), 669-677 (1992)
   PUBMED   1547813
REFERENCE   9  (bases 1 to 1517)
  AUTHORS   Syha-Jedelhauser,J., Wendling,U. and Reske,K.
  TITLE     Complete coding nucleotide sequence of cDNA for the class II RT1.B
            beta I chain of the Lewis rat
  JOURNAL   Biochim Biophys Acta 1089 (3), 414-416 (1991)
   PUBMED   1859846
REFERENCE   10 (bases 1 to 1517)
  AUTHORS   Celada,A. and Maki,R.A.
  TITLE     IFN-gamma induces the expression of the genes for MHC class II I-A
            beta and tumor necrosis factor through a protein kinase
            C-independent pathway
  JOURNAL   J Immunol 146 (1), 114-120 (1991)
   PUBMED   1845803
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000020.1.
            
            On Nov 27, 2020 this sequence version replaced NM_001004084.2.
            
            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 :: BC079121.1, X56596.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN16676809, SAMN16676810
                                           [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
            1-162               JAXUCZ010000020.1  4603957-4604118     c
            163-429             JAXUCZ010000020.1  4602346-4602612     c
            430-711             JAXUCZ010000020.1  4600719-4601000     c
            712-822             JAXUCZ010000020.1  4600103-4600213     c
            823-846             JAXUCZ010000020.1  4599743-4599766     c
            847-1517            JAXUCZ010000020.1  4598475-4599145     c
FEATURES             Location/Qualifiers
     source          1..1517
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="20"
                     /map="20p12"
     gene            1..1517
                     /gene="RT1-Bb"
                     /gene_synonym="Bb; RT1.B"
                     /note="RT1 class II, locus Bb"
                     /db_xref="GeneID:309622"
                     /db_xref="RGD:3469"
     exon            1..162
                     /gene="RT1-Bb"
                     /gene_synonym="Bb; RT1.B"
                     /inference="alignment:Splign:2.1.0"
     CDS             69..860
                     /gene="RT1-Bb"
                     /gene_synonym="Bb; RT1.B"
                     /note="rano class II histocompatibility antigen, B-1 beta
                     chain; RT1.Bbeta 1; RT1 class II histocompatibility
                     antigen, B-1 beta chain; MHC class II antigen B beta
                     chain; RT1.B-beta(1)"
                     /codon_start=1
                     /product="rano class II histocompatibility antigen, B-1
                     beta chain precursor"
                     /protein_id="NP_001004084.1"
                     /db_xref="GeneID:309622"
                     /db_xref="RGD:3469"
                     /translation="MALQTPSFLLPAAVVVLMVLSSPGTEGRDSPRDFVFQFKGLCYY
                     TNGTQRIRLVIRYIYNREEYVRFDSDVGEFRALTELGRPSAEYYNKQYLERTRAELDT
                     VCRHNYEETEVPTSLRRLEQPNVAISLSRTEALNHHNLLVCSVTDFYPAQIKVRWFRN
                     GQEETAGVVSTQLIRNGDWTFQILVMLEMTPQRGEVYICHVDHPSLESPVTVEWRAQS
                     ESAQSKMLSGIGGFVLGVIFLGLGLFIRHKRQKGPRGPPPAGLLQ"
     exon            163..429
                     /gene="RT1-Bb"
                     /gene_synonym="Bb; RT1.B"
                     /inference="alignment:Splign:2.1.0"
     exon            430..711
                     /gene="RT1-Bb"
                     /gene_synonym="Bb; RT1.B"
                     /inference="alignment:Splign:2.1.0"
     exon            712..822
                     /gene="RT1-Bb"
                     /gene_synonym="Bb; RT1.B"
                     /inference="alignment:Splign:2.1.0"
     exon            823..846
                     /gene="RT1-Bb"
                     /gene_synonym="Bb; RT1.B"
                     /inference="alignment:Splign:2.1.0"
     exon            847..1517
                     /gene="RT1-Bb"
                     /gene_synonym="Bb; RT1.B"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 aactttgctt tctgaagagg gcacagctgg tgtgagtcct ggtgactgcc attacctgtt
       61 ccttagagat ggctctgcag acccccagct tcctcctccc ggcagctgtg gttgtgctga
      121 tggtgctgag cagcccaggg actgagggca gagactcccc aagggatttc gtattccagt
      181 tcaagggcct gtgctactac accaacggga cgcagcgcat acggctcgtg atcagataca
      241 tctacaaccg ggaggagtac gtgcgcttcg acagcgacgt gggcgagttc cgcgcgctga
      301 ccgagctggg gcggccctca gccgagtact ataacaaaca gtacctggag cggacgcggg
      361 ccgagctgga cacggtctgc agacacaact acgaggagac ggaggtcccc acctccctgc
      421 ggcggcttga gcagcccaat gtggccatct ccctgtccag gacagaggcc ctcaaccacc
      481 acaacttgct ggtctgctca gtgacagatt tctacccagc ccagatcaaa gtgcgctggt
      541 tccggaatgg ccaggaggag acggcggggg tcgtgtccac acagcttatt aggaacgggg
      601 actggacctt ccagatcctg gtcatgctgg agatgacgcc tcagcgggga gaggtgtaca
      661 tctgccatgt tgaccacccc agcctcgaga gccccgtcac agtggagtgg cgggcacagt
      721 ccgagtctgc ccagagcaag atgctgagcg gcatcggggg ctttgtgctg ggggtgatct
      781 tcctcgggct tggccttttc atccgtcaca agcgtcagaa aggacctcgg gggcctcctc
      841 cagcagggct cctacagtga cacaggagag tgttttggtt gtgtttgaag agacatggga
      901 aacctgcccc catctttccg catcaaatcc tgcaattctt ctgtccctac agagccagag
      961 cagttagcac cccccccccc ccccccgggc agacgctggc cttgggaaca gacaaaaggc
     1021 agccttctcc aacctcagca tcacgtcaga actcatactc cctcccctgg ttagcaacca
     1081 gcatttctct ggtgcagatg gctcctgacc ttgaaggagg cgggagccaa tatccttgaa
     1141 gtgatgaaag cccactctcg actatgagaa agagccaatt aagtgtcaag tgtgcccaga
     1201 cagctgtgac cagttgtgaa ataccctagc ttctgataac ggaatgagtt acttcttccc
     1261 aggtcaggaa ggtaggtccc tttccagcac tccccacccc atctgaacag gtttgtctca
     1321 gggttggaag gatggcactc ctttaccccc tccccaatca catactgcca aagctcgaga
     1381 agcccagctt acgcatattc ctatatatgt cacaagcccc ttgatgtgag cattgaattc
     1441 ctaacctgtg gaacagggaa ggcttgtgat ctgatttggg tcagacccgt ataataaaga
     1501 ttctctttgt tcttgca
//
