LOCUS       NM_001413479            2652 bp    mRNA    linear   ROD 01-APR-2024
DEFINITION  Rattus norvegicus cytotoxic and regulatory T cell molecule (Crtam),
            transcript variant 1, mRNA.
ACCESSION   NM_001413479 XM_039081045
VERSION     NM_001413479.1
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 2652)
  AUTHORS   Cortez,V.S., Cervantes-Barragan,L., Song,C., Gilfillan,S.,
            McDonald,K.G., Tussiwand,R., Edelson,B.T., Murakami,Y.,
            Murphy,K.M., Newberry,R.D., Sibley,L.D. and Colonna,M.
  TITLE     CRTAM controls residency of gut CD4+CD8+ T cells in the steady
            state and maintenance of gut CD4+ Th17 during parasitic infection
  JOURNAL   J Exp Med 211 (4), 623-633 (2014)
   PUBMED   24687959
REFERENCE   2  (bases 1 to 2652)
  AUTHORS   Zhang,S., Lu,G., Qi,J., Li,Y., Zhang,Z., Zhang,B., Fan,Z., Yan,J.
            and Gao,G.F.
  TITLE     Competition of cell adhesion and immune recognition: insights into
            the interaction between CRTAM and nectin-like 2
  JOURNAL   Structure 21 (8), 1430-1439 (2013)
   PUBMED   23871486
REFERENCE   3  (bases 1 to 2652)
  AUTHORS   Rubinstein,R., Ramagopal,U.A., Nathenson,S.G., Almo,S.C. and
            Fiser,A.
  TITLE     Functional classification of immune regulatory proteins
  JOURNAL   Structure 21 (5), 766-776 (2013)
   PUBMED   23583034
REFERENCE   4  (bases 1 to 2652)
  AUTHORS   Takeuchi,A., Itoh,Y., Takumi,A., Ishihara,C., Arase,N.,
            Yokosuka,T., Koseki,H., Yamasaki,S., Takai,Y., Miyoshi,J.,
            Ogasawara,K. and Saito,T.
  TITLE     CRTAM confers late-stage activation of CD8+ T cells to regulate
            retention within lymph node
  JOURNAL   J Immunol 183 (7), 4220-4228 (2009)
   PUBMED   19752223
REFERENCE   5  (bases 1 to 2652)
  AUTHORS   Yeh,J.H., Sidhu,S.S. and Chan,A.C.
  TITLE     Regulation of a late phase of T cell polarity and effector
            functions by Crtam
  JOURNAL   Cell 132 (5), 846-859 (2008)
   PUBMED   18329370
REFERENCE   6  (bases 1 to 2652)
  AUTHORS   Boles,K.S., Barchet,W., Diacovo,T., Cella,M. and Colonna,M.
  TITLE     The tumor suppressor TSLC1/NECL-2 triggers NK-cell and CD8+ T-cell
            responses through the cell-surface receptor CRTAM
  JOURNAL   Blood 106 (3), 779-786 (2005)
   PUBMED   15811952
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000008.1.
            
            On Nov 1, 2022 this sequence version replaced XM_039081045.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26643288.33281.1,
                                           SRR26643284.11125.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760389 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-87                JAXUCZ010000008.1  50274386-50274472   c
            88-228              JAXUCZ010000008.1  50265232-50265372   c
            229-381             JAXUCZ010000008.1  50263641-50263793   c
            382-525             JAXUCZ010000008.1  50261130-50261273   c
            526-687             JAXUCZ010000008.1  50259505-50259666   c
            688-768             JAXUCZ010000008.1  50256039-50256119   c
            769-852             JAXUCZ010000008.1  50252526-50252609   c
            853-999             JAXUCZ010000008.1  50249535-50249681   c
            1000-1086           JAXUCZ010000008.1  50240665-50240751   c
            1087-2652           JAXUCZ010000008.1  50237210-50238775   c
FEATURES             Location/Qualifiers
     source          1..2652
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="8"
                     /map="8q22"
     gene            1..2652
                     /gene="Crtam"
                     /note="cytotoxic and regulatory T cell molecule"
                     /db_xref="GeneID:300649"
                     /db_xref="RGD:1304602"
     exon            1..87
                     /gene="Crtam"
                     /inference="alignment:Splign:2.1.0"
     CDS             42..1211
                     /gene="Crtam"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1"
                     /codon_start=1
                     /product="cytotoxic and regulatory T-cell molecule isoform
                     1 precursor"
                     /protein_id="NP_001400408.1"
                     /db_xref="GeneID:300649"
                     /db_xref="RGD:1304602"
                     /translation="MWWGTLSLLFCVPVQAAFLNMETIEVEEGQTLNLTCVTSLTKNA
                     SLQWLAPSGFTIFLNQHPALKSSKYQLLHHSATQLSVSVSNVTLREEGVYTCLHYGSS
                     VKTKQVRVTVLVTPFQPTVEALVLRRQNGEKSVVLKCSTERSKPPPQVTWLLGGGLEI
                     DGELHHEFEADGKISNTTSTLVVRSYGKNSTVHCVIRHKGLQGRKLVAPFRFGDLVAD
                     QETTSEAPEQSSLSSQALQQPTSTVSMMENSSMPETDKEEKEHATQDPVMITEASAQH
                     SGLARRNSGILLLTLVSFLIFILFIIIQLFIMKLRKAHVIWKKESEISEQALESYRSR
                     SNNEETSSQENNSQASQSKHCMNYIMRLYSGAKTKKSARHWKMEGKHSRVPESIV"
     exon            88..228
                     /gene="Crtam"
                     /inference="alignment:Splign:2.1.0"
     exon            229..381
                     /gene="Crtam"
                     /inference="alignment:Splign:2.1.0"
     exon            382..525
                     /gene="Crtam"
                     /inference="alignment:Splign:2.1.0"
     exon            526..687
                     /gene="Crtam"
                     /inference="alignment:Splign:2.1.0"
     exon            688..768
                     /gene="Crtam"
                     /inference="alignment:Splign:2.1.0"
     exon            769..852
                     /gene="Crtam"
                     /inference="alignment:Splign:2.1.0"
     exon            853..999
                     /gene="Crtam"
                     /inference="alignment:Splign:2.1.0"
     exon            1000..1086
                     /gene="Crtam"
                     /inference="alignment:Splign:2.1.0"
     exon            1087..2652
                     /gene="Crtam"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 aggaagctgt cagagactcc ctcccagcca gcccagcgag catgtggtgg ggaaccctca
       61 gtttgctgtt ctgcgtgccc gtgcaagcag cctttctcaa catggagacc atcgaggtgg
      121 aggaaggcca gacgctcaac ctcacatgtg ttacttctct gacgaaaaat gcctctctcc
      181 agtggctggc cccctcaggg ttcaccattt ttttaaatca gcatcctgct ttaaaaagtt
      241 ccaaatacca gcttctccac cattcagcta cacagctctc cgttagcgtg tccaatgtaa
      301 ctctacgaga ggaaggtgtg tatacgtgct tacattacgg gagttccgtg aagacgaagc
      361 aagttagagt gaccgtgtta gtgacgcctt tccagccaac tgtggaagct ttggttctca
      421 gaagacagaa cggagagaaa tctgttgtgc tgaagtgttc cacagagaga agcaagcccc
      481 ctccgcaggt cacctggctc ctggggggcg gtctggagat cgatggtgaa cttcaccatg
      541 aatttgaagc tgatgggaaa ataagtaaca ccaccagcac gctcgtagtc cgcagctatg
      601 gcaaaaactc aaccgtgcac tgcgttatcc ggcacaaggg cttgcaagga aggaagctgg
      661 ttgctccctt ccggtttgga gatttggtgg cagatcaaga aacaacctca gaggcccctg
      721 agcagagctc tctctcctcc caagccctcc agcagcccac gagtacagtc tcaatgatgg
      781 aaaattccag tatgccggag actgacaagg aagagaaaga acatgccact caagaccctg
      841 tcatgatcac tgaagccagt gctcagcatt cagggctggc caggaggaat agtggcatcc
      901 tgctgctcac gctggtgtcc ttcctcattt tcatcctctt catcatcatt cagctcttca
      961 tcatgaagct tcgtaaagcg cacgtgatat ggaagaagga aagtgaaatt tcagagcaag
     1021 ctctagaaag ctacagatca agatccaaca atgaggaaac atcttcccag gagaataaca
     1081 gccaggcctc acagtctaag cattgcatga actacatcat gcggttatac tcgggagcca
     1141 aaacaaagaa gagtgcccgg cattggaaga tggagggcaa gcacagtcgt gtccccgaga
     1201 gtattgtgta gtgttcccag tgatagaaga taggatttcg gggcagctgt atcaggccct
     1261 ggaaagaatc ataagtactg tgacataaaa ataagatgtc cactgagtac agttcaagac
     1321 agcgtccatt gagccagggc agccacatga ggaccaagcc atggacagaa agctcctcct
     1381 tgaaagacaa acatagaaag aacctattgt gactgacact acctcagagc cggaggactc
     1441 tgctaagtct tttggatcag ggtcaaaatg accagtgagc atctgacctc gaagggagca
     1501 gcagttttta gatatggggc tggagtggaa ctatttgaat tggtttaaaa tctttccttc
     1561 tggtcaagaa ggacttaagc atgagaagga cccaaagaag acctgagcta ccagcagcct
     1621 actctcaaga caggctctag gaagaggcca tgtgggcaac agagaaaagt gggatgtcac
     1681 agcatgcagt ggacatgacc acccagagat ccacaaccct caataccaga gctgaattca
     1741 gctgccaagg ggcttcctta caaactgtga gccaacctga caggcagttc ttaaccaaat
     1801 tacaccatgg caagggcatg gacagaagca aaccgcgagt ttggttgaca gactgttgaa
     1861 ttcatgaatg gtttttagaa ctttaataaa gactggagtg tatctttttt agaggctgtc
     1921 atgcccattg gttatctacg tgaaaaaaag atcaatttag atgacatagc aaactctgat
     1981 tttataaaaa tgaaacgttt ctcactagtt ggatctgaga aaaccagctt gcaagtatta
     2041 catgcacacc cgtgtacatg tttgtacaca cctatgcaca cactcataca tacttgcttg
     2101 cacccaccca tgcaacacaa acaaatacat acacatacct atatcgtaag tgtgttattg
     2161 tagacaccag ctcctcctgg tcctatccct ctcctataat gacttttttt ccatttaaca
     2221 atcacgaaat tatagcaaac tataaagaca gcatagagga tcttcctcaa ttagttgaga
     2281 gtgaaagggc ctgatgctca acaccccttg aaaccctctg attaccccaa gaaagacaca
     2341 tatcaccaca aagaaaacat ttcagtcagg aaagtagcat cgatgtcttt cactcatggt
     2401 ccttggatgc tgtggtggtt tgaacgtggc cttgttggag tagctgtttc actgtgggta
     2461 tgggctttaa caccctcatc ctagctgcct agaagccggt cttccactag caaccttcag
     2521 atgaagatgt agaactctca gctcctcctg caccatgcct gcctggatgc tgccatgttc
     2581 ttgccttgac gataatggac tgaacctctg aacctataag ccagccctaa ttaaatgttg
     2641 tcctttatga ga
//
