LOCUS       NM_001008830            1595 bp    mRNA    linear   ROD 03-APR-2024
DEFINITION  Rattus norvegicus RT1 class I, locus A3 (RT1-A3), mRNA.
ACCESSION   NM_001008830 XM_228013
VERSION     NM_001008830.2
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 1595)
  AUTHORS   Dai,K.Z., Ryan,J.C., Naper,C. and Vaage,J.T.
  TITLE     Identification of MHC Class Ib Ligands for Stimulatory and
            Inhibitory Ly49 Receptors and Induction of Potent NK Cell
            Alloresponses in Rats
  JOURNAL   J Immunol 200 (8), 2847-2859 (2018)
   PUBMED   29531166
REFERENCE   2  (bases 1 to 1595)
  AUTHORS   VanGuilder Starkey,H.D., Van Kirk,C.A., Bixler,G.V., Imperio,C.G.,
            Kale,V.P., Serfass,J.M., Farley,J.A., Yan,H., Warrington,J.P.,
            Han,S., Mitschelen,M., Sonntag,W.E. and Freeman,W.M.
  TITLE     Neuroglial expression of the MHCI pathway and PirB receptor is
            upregulated in the hippocampus with advanced aging
  JOURNAL   J Mol Neurosci 48 (1), 111-126 (2012)
   PUBMED   22562814
  REMARK    GeneRIF: Induction of the MHCI antigen processing and presentation
            pathway in hippocampal neurons and glia may contribute to
            age-related hippocampal dysfunction by increasing neuroimmune
            signaling or altering synaptic homeostasis.
REFERENCE   3  (bases 1 to 1595)
  AUTHORS   Gonzalez-Munoz,A.L., Le Rolle,A.F., Brun,H., Hedrich,H.J.,
            Wedekind,D., Powis,S.J., Joly,E. and Butcher,G.W.
  TITLE     A novel instance of class I modification (cim) affecting two of
            three rat class I RT1-A molecules within one MHC haplotype
  JOURNAL   J Immunol 171 (1), 274-284 (2003)
   PUBMED   12817008
REFERENCE   4  (bases 1 to 1595)
  AUTHORS   Walter,L. and Gunther,E.
  TITLE     Physical mapping and evolution of the centromeric class I
            gene-containing region of the rat MHC
  JOURNAL   Immunogenetics 51 (10), 829-837 (2000)
   PUBMED   10970097
REFERENCE   5  (bases 1 to 1595)
  AUTHORS   Leong,L.Y., Le Rolle,A.F., Deverson,E.V., Powis,S.J., Larkins,A.P.,
            Vaage,J.T., Stokland,A., Lambracht-Washington,D., Rolstad,B.,
            Joly,E. and Butcher,G.W.
  TITLE     RT1-U: identification of a novel, active, class Ib alloantigen of
            the rat MHC
  JOURNAL   J Immunol 162 (2), 743-752 (1999)
   PUBMED   9916694
REFERENCE   6  (bases 1 to 1595)
  AUTHORS   Wang,M., Stepkowski,S.M., Tian,L., Langowski,J.L., Yu,J. and
            Kahan,B.D.
  TITLE     Nucleotide sequences of three distinct clones coding for rat heavy
            chain class I major histocompatibility antigens
  JOURNAL   Immunogenetics 43 (5), 318-320 (1996)
   PUBMED   9110936
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000020.1.
            
            On Mar 5, 2021 this sequence version replaced NM_001008830.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26643289.43464.1, MG963097.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on expression, longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-91                JAXUCZ010000020.1  4849451-4849541
            92-361              JAXUCZ010000020.1  4849746-4850015
            362-637             JAXUCZ010000020.1  4850200-4850475
            638-913             JAXUCZ010000020.1  4851528-4851803
            914-1054            JAXUCZ010000020.1  4851898-4852038
            1055-1084           JAXUCZ010000020.1  4852215-4852244
            1085-1132           JAXUCZ010000020.1  4852588-4852635
            1133-1595           JAXUCZ010000020.1  4852768-4853230
FEATURES             Location/Qualifiers
     source          1..1595
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="20"
                     /map="20p12"
     gene            1..1595
                     /gene="RT1-A3"
                     /gene_synonym="RT1; RT1-A; RT1-A3n; RT1.A3"
                     /note="RT1 class I, locus A3"
                     /db_xref="GeneID:309627"
                     /db_xref="RGD:1359610"
     exon            1..91
                     /gene="RT1-A3"
                     /gene_synonym="RT1; RT1-A; RT1-A3n; RT1.A3"
                     /inference="alignment:Splign:2.1.0"
     CDS             28..1137
                     /gene="RT1-A3"
                     /gene_synonym="RT1; RT1-A; RT1-A3n; RT1.A3"
                     /note="MHC class I antigen; MHC class I protein; RT1 class
                     I, A3; RT1 class Ia, A3n"
                     /codon_start=1
                     /product="RT1 class I, locus A3 precursor"
                     /protein_id="NP_001008830.1"
                     /db_xref="GeneID:309627"
                     /db_xref="RGD:1359610"
                     /translation="MAPRTLLLLLAAALAPTQTQAGSHSLRYFDIAVSRPGLGEPRFI
                     IVGYVDDREVMRFDSDAENPRMKPRARWMEREGPEYWERQTRKVKEKEQIFRDNLRTL
                     LRYYNQSEGGSHTVQRLSGCDVGSDGSLLRGYNQHAYDGRDYIALNEDLKTWTAADTA
                     AQITKNKWERDGEAERRRAYLEGECVEWLRSYLAPRKETLLRSDPPKAHVTLHPRPEG
                     DVTLRCWALGFYPADITLTWQLNGEDLTQDMEFVETRPAGDGTFQKWASVVVPSGEEQ
                     NYTCLVEHEGLPKPLTQRWEPSPSTNTNMGIDVTSVVLGAVAVFVVLAIIGAVVCVVR
                     RRRRRRNTGGKGDYTPARGRDSSQSSDVSLPDCKA"
     exon            92..361
                     /gene="RT1-A3"
                     /gene_synonym="RT1; RT1-A; RT1-A3n; RT1.A3"
                     /inference="alignment:Splign:2.1.0"
     exon            362..637
                     /gene="RT1-A3"
                     /gene_synonym="RT1; RT1-A; RT1-A3n; RT1.A3"
                     /inference="alignment:Splign:2.1.0"
     exon            638..913
                     /gene="RT1-A3"
                     /gene_synonym="RT1; RT1-A; RT1-A3n; RT1.A3"
                     /inference="alignment:Splign:2.1.0"
     exon            914..1054
                     /gene="RT1-A3"
                     /gene_synonym="RT1; RT1-A; RT1-A3n; RT1.A3"
                     /inference="alignment:Splign:2.1.0"
     exon            1055..1084
                     /gene="RT1-A3"
                     /gene_synonym="RT1; RT1-A; RT1-A3n; RT1.A3"
                     /inference="alignment:Splign:2.1.0"
     exon            1085..1132
                     /gene="RT1-A3"
                     /gene_synonym="RT1; RT1-A; RT1-A3n; RT1.A3"
                     /inference="alignment:Splign:2.1.0"
     exon            1133..1595
                     /gene="RT1-A3"
                     /gene_synonym="RT1; RT1-A; RT1-A3n; RT1.A3"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 cggcgtccgg gatctcgatt gggggcgatg gcaccccgca cgctgctcct gctgctggcg
       61 gccgccctgg ccccgaccca gacccaggcg ggctcacact cgctgcggta tttcgacatc
      121 gctgtgtccc ggcccggcct cggggagccc cggttcatta tcgtcggcta cgtggacgac
      181 agggaggtca tgcgcttcga cagcgacgcg gagaatccga ggatgaagcc tcgggcgcgg
      241 tggatggagc gggaggggcc ggagtattgg gagcggcaga cacggaaagt caaggaaaag
      301 gagcagattt tccgagacaa cctgaggacc ctgctccgct actacaacca gagcgagggc
      361 ggctctcaca ccgtccagag attgtctggc tgtgacgtgg ggtcggacgg gagcctcctc
      421 cgcgggtata atcagcacgc ctacgatggc cgcgattaca tcgccctgaa cgaagacctg
      481 aaaacgtgga cggcggcgga cacagcggcg cagatcacca aaaacaagtg ggaacgggat
      541 ggtgaggcag agagacgcag ggcctacctg gagggcgagt gtgtggagtg gctccgcagt
      601 tacctggcac ccaggaagga gacgctgctg cgctcagatc ccccaaaggc acatgtgacc
      661 cttcacccca gacctgaagg tgatgtcacc ctgaggtgct gggccctggg cttctaccct
      721 gctgacatca ccctgacctg gcagttgaat ggggaggacc tgacccagga catggagttt
      781 gtggagacca ggcctgcagg ggatggaacc ttccagaagt gggcatctgt ggtggtgcct
      841 tctggggagg agcagaatta cacatgcctt gtggagcatg aggggctccc taagccgctt
      901 acccagagat gggagccttc tccatccacc aacaccaaca tgggaatcga tgttacttct
      961 gttgttcttg gagctgtggc tgtctttgta gttttggcca tcattggagc tgtggtgtgt
     1021 gttgtgagga ggaggaggag gaggagaaac acaggtggga aaggagacta cacccctgct
     1081 cgaggcaggg acagctccca gagctctgat gtgtctctcc cagattgtaa agcatgaaga
     1141 cagctgcctg gagtggactg agtgacagac gatgtgttca ggtctctcct gtgacaccca
     1201 gagccctcgg ttctctttag acaccagtgt ctgatgctcc ctgtgattct atggcttctg
     1261 tgtgaaggac tgtggagccc agcccgccct gcacaccagg accctgtccc tgcactgcct
     1321 gtgttccctt ccacattcag ccttgctggt ccagcctggg gttcaggggt ggggacatct
     1381 gcatcctgtc cccctgtgct accctgagct gcagcccctc acttccaccc tgagaataag
     1441 aatctgagtg tgaacttgat tgttcacatc cttgacacaa gtgtggatgg ctttttaaat
     1501 tactggatgg aatacttagg ggttttttgt tttggggttt tgctttgttt tgttttgttt
     1561 ttgaaaaaaa taattggcag atggagaagc ttcca
//
