LOCUS       NM_198297               4706 bp    mRNA    linear   ROD 08-JUN-2024
DEFINITION  Mus musculus T cell receptor associated transmembrane adaptor 1
            (Trat1), mRNA.
ACCESSION   NM_198297
VERSION     NM_198297.4
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 4706)
  AUTHORS   Koelsch,U., Schraven,B. and Simeoni,L.
  TITLE     SIT and TRIM determine T cell fate in the thymus
  JOURNAL   J Immunol 181 (9), 5930-5939 (2008)
   PUBMED   18941181
  REMARK    GeneRIF: TRIM and Src homology domain-containing tyrosine
            phosphatase 2-interacting transmembrane adaptor protein (SIT)
            regulate cell fate of developing thymocytes and are essential
            regulators of central tolerance.
REFERENCE   2  (bases 1 to 4706)
  AUTHORS   Kolsch,U., Arndt,B., Reinhold,D., Lindquist,J.A., Juling,N.,
            Kliche,S., Pfeffer,K., Bruyns,E., Schraven,B. and Simeoni,L.
  TITLE     Normal T-cell development and immune functions in TRIM-deficient
            mice
  JOURNAL   Mol Cell Biol 26 (9), 3639-3648 (2006)
   PUBMED   16612002
  REMARK    GeneRIF: TRIM is dispensable for T-cell development and peripheral
            immune functions.
REFERENCE   3  (bases 1 to 4706)
  AUTHORS   Huynh,T., Wurch,A., Bruyns,E., Korinek,V., Schraven,B. and
            Eichmann,K.
  TITLE     Developmentally regulated expression of the transmembrane adaptor
            protein trim in fetal and adult T cells
  JOURNAL   Scand J Immunol 54 (1-2), 146-154 (2001)
   PUBMED   11439161
REFERENCE   4  (bases 1 to 4706)
  AUTHORS   Kirchgessner,H., Dietrich,J., Scherer,J., Isomaki,P., Korinek,V.,
            Hilgert,I., Bruyns,E., Leo,A., Cope,A.P. and Schraven,B.
  TITLE     The transmembrane adaptor protein TRIM regulates T cell receptor
            (TCR) expression and TCR-mediated signaling via an association with
            the TCR zeta chain
  JOURNAL   J Exp Med 193 (11), 1269-1284 (2001)
   PUBMED   11390434
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC166114.5.
            
            On Feb 22, 2019 this sequence version replaced NM_198297.3.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK138735.1, AK030807.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849383 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            CDS uses downstream in-frame AUG :: upstream AUG and CDS extension
                                                is not conserved
            RefSeq Select criteria           :: based on conservation,
                                                expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-149               AC166114.5         169354-169502       c
            150-260             AC166114.5         158805-158915       c
            261-297             AC166114.5         151689-151725       c
            298-359             AC166114.5         139639-139700       c
            360-448             AC166114.5         137617-137705       c
            449-4706            AC166114.5         128214-132471       c
FEATURES             Location/Qualifiers
     source          1..4706
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="16"
                     /map="16 30.75 cM"
     gene            1..4706
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /note="T cell receptor associated transmembrane adaptor 1"
                     /db_xref="GeneID:77647"
                     /db_xref="MGI:MGI:1924897"
     exon            1..149
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /inference="alignment:Splign:2.1.0"
     CDS             143..706
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /note="T-cell receptor-interacting molecule"
                     /codon_start=1
                     /product="T-cell receptor-associated transmembrane adapter
                     1"
                     /protein_id="NP_938039.3"
                     /db_xref="CCDS:CCDS37352.1"
                     /db_xref="GeneID:77647"
                     /db_xref="MGI:MGI:1924897"
                     /translation="MSGSSGCPFFLWGLLAFLGLALVISLIFNISHYVEKQRRDEIYR
                     YSDDYIPRVDEYYVEDAPIYGNLENIIPEPLDENCYEQMKGRPQRSASDPQEVAAPAQ
                     VPAEAQMCYASLDHSVKGKRRRPRKQNTNVSDRGKDTQVYTMDANVSQINMVESFPPD
                     NQVVEESIHDDPARLFGLIRAKREPVI"
     exon            150..260
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /inference="alignment:Splign:2.1.0"
     exon            261..297
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /inference="alignment:Splign:2.1.0"
     exon            298..359
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /inference="alignment:Splign:2.1.0"
     exon            360..448
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /inference="alignment:Splign:2.1.0"
     exon            449..4706
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1105..1110
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /note="hexamer: AATAAT"
     polyA_site      1142
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /note="major polyA site"
     regulatory      1634..1639
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /note="hexamer: ATTAAA"
     polyA_site      1656
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /note="major polyA site"
     regulatory      1789..1794
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /note="hexamer: ATTAAA"
     polyA_site      1807
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
     regulatory      3544..3549
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
                     /note="hexamer: ATTAAA"
     polyA_site      3569
                     /gene="Trat1"
                     /gene_synonym="C030046M14Rik; Tcrim; Trim"
ORIGIN      
        1 gagtactgat aaagatatat gttggtgctg tgctgtttct aacataacag agcaacggca
       61 tttaaggaaa aaagttggtg gagaattctt agcctacgga tctctttcat ggatgtaccc
      121 aggctcctct gaaagggcta gcatgtcagg aagctctgga tgccccttct tcctctgggg
      181 acttctagcc ttcttgggct tggctctggt tatatcgttg atcttcaata tttcccacta
      241 tgtagagaag cagagacgag atgaaatata cagatactct gatgactaca ttccaagagt
      301 tgatgaatat tatgttgaag atgctccaat ttatggcaat ttagaaaata taatcccaga
      361 accactggat gagaactgct atgaacaaat gaaaggtcga cctcagagat ctgcaagcga
      421 tccgcaggaa gtggctgcac ctgcacaggt accggctgaa gctcagatgt gctatgcctc
      481 actggatcac agcgtgaagg ggaaacgcag aaggcccagg aaacagaata ctaatgtgtc
      541 agacagagga aaggatacac aagtctatac aatggatgcc aacgtttctc agatcaatat
      601 ggtagaaagt ttcccaccag ataaccaggt agtagaggaa agcattcatg atgatcccgc
      661 tagactgttt gggttgatcc gtgccaagag agagcctgta atctaactgg accatcatcc
      721 atctcaatga taacacccta tgaaagatgg ttaaaatccc tcatgtgaca cacagggact
      781 ggcaaggtga cggtctgctc atttgtcaat gggatggtac cttcctttct cttcatggat
      841 tgcatccctg cacattaaat ctaactaaaa ttagctagat aaattcagtt aaagaatatc
      901 caaataggaa aagtaaaata ataaaatcca gtttgcaact taaattactt ggcaataaaa
      961 taaaaatgaa cagtaatacc taataaggac aaatttttaa aaatcaaagt acatatgtgc
     1021 tataggatat cttgaatgaa agagaaaagc cagtgtctta aaagtttaat cagtaaaaca
     1081 catcttcttt catcaatgtg aataaataat tagaaatgca ttggaaatgt aattgaggaa
     1141 aatatgtaat aaaaaaaatt aaaaaaaaca aagtacactg ccaagaaaat tagaataatc
     1201 ctgagtattt ttccaaaatg taaataatat tatcattttt taaactgtta taaaaataaa
     1261 tccatgctct ttgcaacaat taaaaattaa gaacatagaa aattctacta gtcagagata
     1321 atcactatga ataactttct ctgtgttttt ggatatttta ctggacataa ccatctatgt
     1381 gtatcagcct tttttttttc tgatttaact taaaagtagg ggattgtgca tattatttaa
     1441 attctctttg tgtatcaaga gactatggct ttagttctac tacatttaac tatattaacc
     1501 tgtattcagc tttgtatttg atgattctgg gcagcaaaca cagggtcttt cagatgaaag
     1561 acgagtgctc catcctgagc ttcatcccaa gtctgtctca aaattctgat gtctgcattg
     1621 tatctcattt atgattaaat cataattcat ttaaaggagt ttgaagacta cttaaattac
     1681 ttcaagcttc tatttaatgt gttcacaaat aatattttaa tgagaatgtt ccaagacatg
     1741 tctggatact tatctagttt cttttttgtg ttaagtgctt aaaggggaat taaatattta
     1801 aagataaggt tttgtattgt taatttccat aggtcagatc tctgaaaggt caacaattgg
     1861 accaaaagta ggcatacccc ttagattcta aaggcttatc ccacattgtc tcccaaacag
     1921 ttaactcaat aaacctcagc acagcatgga gaggtattgc tgtgacccag catgcaggag
     1981 gctgaggtag agagaactgt gttagctcca ggccatctca gattaatgag tgaattcctg
     2041 gtcagcttgg gctaagagtg aaactatgat tcaaaatgaa gaatcagaaa caaaatcact
     2101 tctattaccc tccattaaga aaggaagctt gatggtagtc tataataagc atctctaagt
     2161 gtcataaact gtattttaaa atgctattct gatagagaca cttggacaga gcattctttt
     2221 atctctactt ttctggctgt gtgctacaga atttatatac atcacatttt tataatactt
     2281 ttttaaggtt tgatagaatt ttaaaaaatg ctcctttccc tttccttatc cccaaacctc
     2341 ttcatacaac ccctcttgct ttctgtcagt gacccctctc tctctttaat tgtgacaaat
     2401 acgaatgtgt gtaattggag agcactccat ggagaagact atttctctat ctttcagtgt
     2461 tacccagttg cctgtagtgt ttgtctaaag ctgagaccct acacacacct tccctttcat
     2521 gatggcatgt ccactgaagt caccattgct ccaatcagtc agtcgtgtta atgagactta
     2581 cagtttttat ttaaattacc aattgatttt gaatgtatta aaacaataca aagtactttc
     2641 ataattttcc atgtaataag actgtctaga cattctcatg ttctttgtac ccacgcaggg
     2701 ttctgtctgg taccccacat gtcagcttaa aggacttctt taactatttt tatcattcag
     2761 gtcaatgaat gataaaactc ccctagcatg ctgctgtaca tctgaaaaag ccattgtatt
     2821 agttttttag agaaattgtc actgggtaaa aaatgtctaa ggttgagctg atgatgcttc
     2881 tttgaacgat ctgtacagtt cctttctggg acacagagat gccatctaaa aacctgctga
     2941 cacccttact gaatcaaagc ttctggaatt gaaacaggtt gaatatcttt tccttcaaag
     3001 attaagtaat ccttctagat ttgagaagca gaacaagcaa cacttgtccc tatttgaaca
     3061 ttgtagctgt attttcaccc aatgaattat ggatttcaat cagaaagact gatttttctc
     3121 aataacagca ctgatgagtg tgagttcacg ggcctcgttt tgtaatggaa gcccactgtc
     3181 acaaccttga tcatgttgtg aacatgtcag aaaatagttt ggacagtagt gggctctttt
     3241 ctgcttcacc attcatcaac ctagagcctc tacatattct tttcaaggaa ctcagctcta
     3301 cactaatgtg tttagcatct ctacagagga gttctctggg cacctttgtg atacctgtat
     3361 gcttcctcag agtaatgtct gacattttct ggaatttcaa cagtcttatt gttaataatg
     3421 cagattcata tataattata aatctagatt ctgtataata gagaaaacat gcagcatttt
     3481 tatctttctc aatatgtttt tcagttacat acattttctt ggcattggaa tgatttcttt
     3541 tttattaaat actttcttta tttacatttc aaatgttatc ccctttccta gtttcccctc
     3601 cgaaaatccc ctatcccctc ccctctctcc ttgcttccca acccacccac tcccgcttcc
     3661 tggtgctggc attaccctat actggaccat agaaccttca caggaccaag ggtctcttct
     3721 ctcattgatg accgactaga ccattctctg ctacatatga agctagagcc atgagttcca
     3781 ccaagtgttt tctgtggttg gtggtttagt cccagggagc taagggggta ctggttagtt
     3841 catattggtg ttcctcctat gggactgcaa accccttcag ctccttgggt actttctcta
     3901 gctccttcat tggggaccct gagctttgtc caatgtatgg ctgttagcat ccacctctgt
     3961 atttgctagg cactggcaga gcctctgagg agacagctat atcaggctcc tgtcagtaag
     4021 ctcttgttgg catccacaat agtgtctggg tttggtggtt gtttatggga tggatcccta
     4081 ggtagtgcag tctctggatg gccattcctt cagtctctgc tccaaacttt gtctctgaaa
     4141 ctccttccat gggtattttg tcctggaatg attttacttt tctttgtggc ataaaattct
     4201 gtttgttctc ctgggaggct ctgtccgagc ctggcaaata cagaggcaga tgctcacagc
     4261 caaccattgg actgagcaca gtcaccaatg gaggagttag agaaaggacc aaaggagttg
     4321 aaggggtttg caaccccata ggaagaacaa caatatcaac aaaacagatt acacaccccc
     4381 ccccaccccg ccagagctcc cagggactaa accaccaacc aaagagtaca catggaggga
     4441 cccatagctc cagtcacata tgtagcagag cgtggcttta tcagacatca atgggaggag
     4501 aggcctttgg tcctggaaag ccttgatacc ccagtgtagg ggaatgccag ggtggggagg
     4561 tgggtgtggg tgggtggggg agcaccctta tagaagcagg gggaaagatg ggatacgggg
     4621 tttccagagg ggaaaccggg aaaggaaatg gaaatatata aaaatccaat aaaaaataaa
     4681 aataaataaa attctgtttg tatatg
//
