LOCUS       NM_001008884            1294 bp    mRNA    linear   ROD 03-APR-2024
DEFINITION  Rattus norvegicus RT1 class II, locus Db1 (RT1-Db1), mRNA.
ACCESSION   NM_001008884 XM_215333
VERSION     NM_001008884.2
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 1294)
  AUTHORS   Toyo-Oka,L., Mahasirimongkol,S., Yanai,H., Mushiroda,T.,
            Wattanapokayakit,S., Wichukchinda,N., Yamada,N., Smittipat,N.,
            Juthayothin,T., Palittapongarnpim,P., Nedsuwan,S., Kantipong,P.,
            Takahashi,A., Kubo,M., Sawanpanyalert,P. and Tokunaga,K.
  TITLE     Strain-based HLA association analysis identified HLA-DRB1*09:01
            associated with modern strain tuberculosis
  JOURNAL   HLA 90 (3), 149-156 (2017)
   PUBMED   28612994
REFERENCE   2  (bases 1 to 1294)
  AUTHORS   Brill,L., Mandel,M., Karussis,D., Petrou,P., Miller,K., Ben-Hur,T.,
            Karni,A., Paltiel,O., Israel,S. and Vaknin-Dembinsky,A.
  TITLE     Increased occurrence of anti-AQP4 seropositivity and unique HLA
            Class II associations with neuromyelitis optica (NMO), among Muslim
            Arabs in Israel
  JOURNAL   J Neuroimmunol 293, 65-70 (2016)
   PUBMED   27049564
REFERENCE   3  (bases 1 to 1294)
  AUTHORS   Hernandez,E.G., Granados,J., Partida-Rodriguez,O., Valenzuela,O.,
            Rascon,E., Magana,U., Escamilla-Tilch,M., Lopez-Reyes,A.,
            Nieves-Ramirez,M., Gonzalez,E., Moran,P., Rojas,L., Valadez,A.,
            Luna,A., Estrada,F.J., Maldonado,C. and Ximenez,C.
  TITLE     Prevalent HLA Class II Alleles in Mexico City Appear to Confer
            Resistance to the Development of Amebic Liver Abscess
  JOURNAL   PLoS One 10 (5), e0126195 (2015)
   PUBMED   25938667
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1294)
  AUTHORS   Esmaeilzadeh,H., Nabavi,M., Amirzargar,A.A., Aryan,Z., Arshi,S.,
            Bemanian,M.H., Fallahpour,M., Mortazavi,N. and Rezaei,N.
  TITLE     HLA-DRB and HLA-DQ genetic variability in patients with
            aspirin-exacerbated respiratory disease
  JOURNAL   Am J Rhinol Allergy 29 (3), e63-e69 (2015)
   PUBMED   25975240
REFERENCE   5  (bases 1 to 1294)
  AUTHORS   Dunstan,S.J., Hue,N.T., Han,B., Li,Z., Tram,T.T., Sim,K.S.,
            Parry,C.M., Chinh,N.T., Vinh,H., Lan,N.P., Thieu,N.T., Vinh,P.V.,
            Koirala,S., Dongol,S., Arjyal,A., Karkey,A., Shilpakar,O.,
            Dolecek,C., Foo,J.N., Phuong le,T., Lanh,M.N., Do,T., Aung,T.,
            Hon,D.N., Teo,Y.Y., Hibberd,M.L., Anders,K.L., Okada,Y.,
            Raychaudhuri,S., Simmons,C.P., Baker,S., de Bakker,P.I.,
            Basnyat,B., Hien,T.T., Farrar,J.J. and Khor,C.C.
  TITLE     Variation at HLA-DRB1 is associated with resistance to enteric
            fever
  JOURNAL   Nat Genet 46 (12), 1333-1336 (2014)
   PUBMED   25383971
REFERENCE   6  (bases 1 to 1294)
  AUTHORS   Ghosh,P., Amaya,M., Mellins,E. and Wiley,D.C.
  TITLE     The structure of an intermediate in class II MHC maturation: CLIP
            bound to HLA-DR3
  JOURNAL   Nature 378 (6556), 457-462 (1995)
   PUBMED   7477400
REFERENCE   7  (bases 1 to 1294)
  AUTHORS   Riberdy,J.M., Newcomb,J.R., Surman,M.J., Barbosa,J.A. and
            Cresswell,P.
  TITLE     HLA-DR molecules from an antigen-processing mutant cell line are
            associated with invariant chain peptides
  JOURNAL   Nature 360 (6403), 474-477 (1992)
   PUBMED   1448172
REFERENCE   8  (bases 1 to 1294)
  AUTHORS   Mizuki,N., Inoko,H., Mizuki,N., Tanaka,H., Kera,J., Tsuiji,K. and
            Ohno,S.
  TITLE     Human leukocyte antigen serologic and DNA typing of Behcet's
            disease and its primary association with B51
  JOURNAL   Invest Ophthalmol Vis Sci 33 (12), 3332-3340 (1992)
   PUBMED   1358857
REFERENCE   9  (bases 1 to 1294)
  AUTHORS   De Palma,J.
  TITLE     Cause & effect, or ... there are lies, damn lies, and statistics
  JOURNAL   Nephrol News Issues 6 (11), 27-28 (1992)
   PUBMED   1300424
REFERENCE   10 (bases 1 to 1294)
  AUTHORS   Syha-Jedelhauser,J. and Reske,K.
  TITLE     Sequence of rat cDNA clone pLR beta 112 coding for the RT1.D beta I
            chain
  JOURNAL   Nucleic Acids Res 18 (15), 4598 (1990)
   PUBMED   2388838
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CO563535.1, AF084933.1 and CV111238.1.
            
            On Sep 18, 2009 this sequence version replaced NM_001008884.1.
            
            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 :: FQ233396.1, FQ233801.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760494, SAMN13663593
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-60                CO563535.1         1-60
            61-1172             AF084933.1         1-1112
            1173-1294           CV111238.1         1-122               c
FEATURES             Location/Qualifiers
     source          1..1294
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="20"
                     /map="20p12"
     gene            1..1294
                     /gene="RT1-Db1"
                     /gene_synonym="Db1; RT1-Db; RT1-Db1n"
                     /note="RT1 class II, locus Db1"
                     /db_xref="GeneID:294270"
                     /db_xref="RGD:1593282"
     exon            1..158
                     /gene="RT1-Db1"
                     /gene_synonym="Db1; RT1-Db; RT1-Db1n"
                     /inference="alignment:Splign:2.1.0"
     CDS             65..859
                     /gene="RT1-Db1"
                     /gene_synonym="Db1; RT1-Db; RT1-Db1n"
                     /note="rano class II histocompatibility antigen, D-1 beta
                     chain; RT1-D beta; MHC class II RT1D beta1 chain antigen;
                     RT1 class II histocompatibility antigen, D-1 beta chain"
                     /codon_start=1
                     /product="rano class II histocompatibility antigen, D-1
                     beta chain precursor"
                     /protein_id="NP_001008884.1"
                     /db_xref="GeneID:294270"
                     /db_xref="RGD:1593282"
                     /translation="MVWLARDSCVAAVILLLTVLSPPVALVRDPTPRFLEQYKSECYF
                     YNGTQRVRLLVRYIYNREEYTRFDSDVGEFRAVTELGRRDTEYYNKQKEYIERERAAV
                     DTICRHNYEISDRFLVPRTVEPKVTVYPSKTQPLKHHNLLVCSVSDFYPGSVEVRWFR
                     NGEEEKDGLVSTGLIPNGDWTFQLLVMLEMVPQGGEVYTCQVEHPSLTSPVRVEWKAQ
                     STSAQNKKMSGVGGIVLGLLFLGAGLFVYFRNQKGQSGLQPTGLLN"
     exon            159..428
                     /gene="RT1-Db1"
                     /gene_synonym="Db1; RT1-Db; RT1-Db1n"
                     /inference="alignment:Splign:2.1.0"
     exon            429..710
                     /gene="RT1-Db1"
                     /gene_synonym="Db1; RT1-Db; RT1-Db1n"
                     /inference="alignment:Splign:2.1.0"
     exon            711..821
                     /gene="RT1-Db1"
                     /gene_synonym="Db1; RT1-Db; RT1-Db1n"
                     /inference="alignment:Splign:2.1.0"
     exon            822..845
                     /gene="RT1-Db1"
                     /gene_synonym="Db1; RT1-Db; RT1-Db1n"
                     /inference="alignment:Splign:2.1.0"
     exon            846..1272
                     /gene="RT1-Db1"
                     /gene_synonym="Db1; RT1-Db; RT1-Db1n"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gagaataaag ttacagtctg aagcttgtct tctcctctga ctcctgtctc tcctctcctc
       61 cagcatggtg tggctcgcca gagattcctg tgtggcagct gtgatcctgt tgctaacagt
      121 gctgagccct ccggtggcgt tggtcagaga ccccacgcca cggtttttgg aacagtataa
      181 atccgagtgt tatttttaca acgggacgca gcgcgtacgg cttctggtca gatacatcta
      241 caaccgggag gagtacacgc gcttcgacag cgacgtgggc gagttccgcg cggtgaccga
      301 gctggggcgg cgggacaccg agtactataa caaacagaag gagtacatag agcgggagag
      361 ggccgcggtg gacacgatct gcagacacaa ctacgagatc tctgatagat tccttgtgcc
      421 gcggacagtt gaacccaagg tgactgtgta cccttcaaag acgcagcccc tgaaacacca
      481 caacctcctg gtctgctctg tgagtgactt ctaccctggc agcgttgaag tcagatggtt
      541 ccggaatggc gaggaagaaa aggatggact cgtgtccact ggcctgatcc caaatggaga
      601 ctggaccttc cagttgttgg tgatgctgga gatggttcct caaggtggag aggtttatac
      661 ctgccaggtg gagcatccca gcctgaccag ccctgtcaga gtcgagtgga aagcacagtc
      721 cacgtctgca caaaataaga agatgagtgg agtcgggggc atcgtgctgg gtctgctctt
      781 cctgggagcc gggctgttcg tctacttcag gaaccagaaa ggacagtctg gacttcagcc
      841 aacaggactc ctgaactgag gtgaggtgac aaggctgaag gaaggcgttc tcccactgtc
      901 accatgtctt gaaaacatgt cctgcttggc ctacattcct ccagagacag tgctcttcca
      961 ggacctggct cctcctgatt ctccaccctg gagatctgtg ctccttgtgg ctgtttaacc
     1021 cctggccaga ccttgcagct ccggggacag aagccccctc tctcacctct cctgctccct
     1081 tttgtccctt gccctttgcc tggcgcttct gagtcagtct gttgtcatat gctttctgac
     1141 atctttttca aataaacaaa gaatgaaagt catctgcttc agagtttcaa gcagaagaaa
     1201 taccattcat gcatagtaag catgggggat agtgtataag aaataaattc agttttaatt
     1261 gttacttgtc aaaaaaaaaa aaaaaaaaaa aaaa
//
