LOCUS       NM_001415714            2556 bp    mRNA    linear   ROD 31-MAR-2024
DEFINITION  Rattus norvegicus tetratricopeptide repeat domain 39C (Ttc39c),
            transcript variant 2, mRNA.
ACCESSION   NM_001415714 XM_006254423
VERSION     NM_001415714.1
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 2556)
  AUTHORS   Gaudet,P., Livstone,M.S., Lewis,S.E. and Thomas,P.D.
  TITLE     Phylogenetic-based propagation of functional annotations within the
            Gene Ontology consortium
  JOURNAL   Brief Bioinform 12 (5), 449-462 (2011)
   PUBMED   21873635
REFERENCE   2  (bases 1 to 2556)
  AUTHORS   Strausberg,R.L., Feingold,E.A., Grouse,L.H., Derge,J.G.,
            Klausner,R.D., Collins,F.S., Wagner,L., Shenmen,C.M., Schuler,G.D.,
            Altschul,S.F., Zeeberg,B., Buetow,K.H., Schaefer,C.F., Bhat,N.K.,
            Hopkins,R.F., Jordan,H., Moore,T., Max,S.I., Wang,J., Hsieh,F.,
            Diatchenko,L., Marusina,K., Farmer,A.A., Rubin,G.M., Hong,L.,
            Stapleton,M., Soares,M.B., Bonaldo,M.F., Casavant,T.L.,
            Scheetz,T.E., Brownstein,M.J., Usdin,T.B., Toshiyuki,S.,
            Carninci,P., Prange,C., Raha,S.S., Loquellano,N.A., Peters,G.J.,
            Abramson,R.D., Mullahy,S.J., Bosak,S.A., McEwan,P.J.,
            McKernan,K.J., Malek,J.A., Gunaratne,P.H., Richards,S.,
            Worley,K.C., Hale,S., Garcia,A.M., Gay,L.J., Hulyk,S.W.,
            Villalon,D.K., Muzny,D.M., Sodergren,E.J., Lu,X., Gibbs,R.A.,
            Fahey,J., Helton,E., Ketteman,M., Madan,A., Rodrigues,S.,
            Sanchez,A., Whiting,M., Madan,A., Young,A.C., Shevchenko,Y.,
            Bouffard,G.G., Blakesley,R.W., Touchman,J.W., Green,E.D.,
            Dickson,M.C., Rodriguez,A.C., Grimwood,J., Schmutz,J., Myers,R.M.,
            Butterfield,Y.S., Krzywinski,M.I., Skalska,U., Smailus,D.E.,
            Schnerch,A., Schein,J.E., Jones,S.J. and Marra,M.A.
  CONSRTM   Mammalian Gene Collection Program Team
  TITLE     Generation and initial analysis of more than 15,000 full-length
            human and mouse cDNA sequences
  JOURNAL   Proc Natl Acad Sci U S A 99 (26), 16899-16903 (2002)
   PUBMED   12477932
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000018.1.
            
            On Dec 27, 2022 this sequence version replaced XM_006254423.3.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26360181.493058.1,
                                           SRR26643297.49394.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-688               JAXUCZ010000018.1  4079944-4080631
            689-737             JAXUCZ010000018.1  4116504-4116552
            738-866             JAXUCZ010000018.1  4118663-4118791
            867-981             JAXUCZ010000018.1  4121935-4122049
            982-1336            JAXUCZ010000018.1  4127506-4127860
            1337-1505           JAXUCZ010000018.1  4130230-4130398
            1506-1599           JAXUCZ010000018.1  4147092-4147185
            1600-1707           JAXUCZ010000018.1  4149489-4149596
            1708-1817           JAXUCZ010000018.1  4153139-4153248
            1818-1941           JAXUCZ010000018.1  4154483-4154606
            1942-2039           JAXUCZ010000018.1  4157770-4157867
            2040-2144           JAXUCZ010000018.1  4160476-4160580
            2145-2183           JAXUCZ010000018.1  4161599-4161637
            2184-2556           JAXUCZ010000018.1  4162287-4162659
FEATURES             Location/Qualifiers
     source          1..2556
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="18"
                     /map="18p13"
     gene            1..2556
                     /gene="Ttc39c"
                     /note="tetratricopeptide repeat domain 39C"
                     /db_xref="GeneID:686179"
                     /db_xref="RGD:1585423"
     exon            1..688
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
     CDS             531..2273
                     /gene="Ttc39c"
                     /note="isoform 2 is encoded by transcript variant 2;
                     tetratricopeptide repeat protein 39C; TPR repeat protein
                     39C"
                     /codon_start=1
                     /product="tetratricopeptide repeat protein 39C isoform 2"
                     /protein_id="NP_001402643.1"
                     /db_xref="GeneID:686179"
                     /db_xref="RGD:1585423"
                     /translation="MAGSEQQRPRRREDGDPDAAAAPLQDAELALAGINMLLNNGFRE
                     SDQLFKQYRNHSPLMSFGASFVSFLNAMMTFEEEKMQLACDDLKTTEKLCESEEAGVI
                     ETIKNKIKKNVDARKSTPSMVDRLQRQIIIADCQVYLAVLSFVKQELSAYIKGGWILR
                     KAWKIYNKCYVDINALQELHQKTLTEEPLSSDAANDNHIVAEGVTEEALSRLKGAVSF
                     GYGLFHLCISMVPPNLLKIINLLGFPGDRLQGLSSLTYASESKDMKAPLATLALLWYH
                     TVVRPFFALDGSDNKGGLDEAKAILLRKESAYPNSSLFMFFKGRIQRLECQINSALTS
                     FHTALELAVDQREIQHVCLYEIGWCSMIELNFKDAFDSFERLKNESRWSQCYYAYLTA
                     VCQGATGDVDGAQLIFKEVQKLFKRKNNQIEQFSVKKAERFRKQTPTRALCVLASIEV
                     LYLWKALPNCSLPNLQRMSQACHEVDDSSVVGLKHLLLGAIHKCLGNSQDAVQFFQRA
                     AKDESCRQNNSYVQPYACYELGCLLLDRAETVARGRTLLLQAKEDFSGYDFENRLHVR
                     VHAALASLRELVPQ"
     exon            689..737
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
     exon            738..866
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
     exon            867..981
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
     exon            982..1336
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
     exon            1337..1505
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
     exon            1506..1599
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
     exon            1600..1707
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
     exon            1708..1817
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
     exon            1818..1941
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
     exon            1942..2039
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
     exon            2040..2144
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
     exon            2145..2183
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
     exon            2184..2556
                     /gene="Ttc39c"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 actggactcc caagggttct gacacgcgtg gaccaagcca aagacacctg agtgcccagc
       61 cgcgctcagt agcagcggac caggagttct ctgaccctga gtcaagctct cccgcccctc
      121 ccagtgcgtc cgaggtccat cctatctcgg agggttgggc attggggcct cgcgtgggtg
      181 tccgcagcct ggcgctagcc tgggggccta tggggcgggt tccggggccc agaggggctg
      241 caggaagcgg aggcagctcc ggacgcctgg atcgaagcgg gcgcagacac ccgaaacggc
      301 tggggtggcc gcgagccggc tgctgagtaa tccccggcgg cgggtggggg cggccgggcg
      361 cccacgttcc ccgcgccgca gcccggcggc ggctccgcct tcgcgtccct ccccgccccc
      421 tgctggctgc tgtgctcggc tcccggcaag tcggacaggg ctcggggagc gcgggccgct
      481 gcagccgcct cccgcacctc tcctcggccc gcgccgggcc tcgtgcgccc atggccggct
      541 cggagcagca gcggccgcgg cggagggagg acggcgaccc ggacgcggca gcggcgcccc
      601 tgcaggacgc ggagctggcc ctggctggca tcaacatgct tctcaacaac ggcttcaggg
      661 agtcggatca gcttttcaaa caatacagaa atcatagccc actaatgagt tttggagcga
      721 gcttcgtcag ctttctgaac gccatgatga cattcgagga ggagaaaatg cagttggcct
      781 gtgatgactt aaagactacg gagaagctgt gtgaaagtga agaggccgga gtgatcgaaa
      841 cgataaagaa taaaattaag aagaacgttg atgcccggaa atccaccccc tccatggtcg
      901 atcgacttca gaggcaaatc attattgccg actgccaggt gtacttggcc gtgctgtcct
      961 ttgtgaaaca agaattgtcg gcctacataa aaggtgggtg gatccttagg aaggcctgga
     1021 agatttacaa taaatgctat gtggacatca acgcccttca ggagctgcat cagaagacgc
     1081 tgacagaaga gcccttgtct tctgatgctg cgaatgataa ccacattgtg gcggaagggg
     1141 tgactgagga ggccctaagc agactgaaag gtgctgtgag ctttggatat ggcctttttc
     1201 acctttgcat atccatggtg cccccaaacc tgctcaaaat catcaacctg ctgggctttc
     1261 ctggagaccg cctacagggc ctttcttcac tgacgtatgc gagcgaaagt aaggacatga
     1321 aggccccttt agctacatta gccctgctgt ggtaccacac tgtggtccgc ccgttctttg
     1381 ccttggacgg cagcgacaac aaagggggcc tggatgaagc taaggcaatt cttctcagaa
     1441 aagagtctgc ttacccaaac tcttccctct tcatgttttt caagggacgg atccagcggt
     1501 tagagtgtca aatcaacagt gccttgactt ccttccacac tgctctggaa ctggctgtag
     1561 accagagaga gatccagcat gtgtgtctgt atgaaatcgg ctggtgcagc atgattgaac
     1621 tcaacttcaa ggatgcattt gattcctttg agaggctgaa gaacgagtcc agatggtccc
     1681 agtgctacta cgcatatcta acagcagttt gtcaaggagc cactggtgac gtggatgggg
     1741 cacagctcat ttttaaagaa gtccagaagc tattcaaaag gaaaaataac cagattgaac
     1801 agttctcagt gaaaaaggct gagcgatttc ggaagcagac cccaaccagg gcactgtgtg
     1861 tgctggcatc cattgaagtt ctgtacttgt ggaaagccct tcccaactgt tccctcccca
     1921 acctgcagag aatgagtcaa gcttgccatg aagtggatga ttcatctgtt gttggattga
     1981 agcatttgct ccttggtgcc atacacaaat gtctcggaaa ctcacaagat gctgttcagt
     2041 tcttccagcg agctgctaaa gacgagtcgt gccgtcagaa taactcatac gtccagccat
     2101 atgcctgcta tgagcttggc tgtctcctgc tagacagagc agagactgta gcaagaggca
     2161 gaacgctact ccttcaggca aaggaggatt tttctggcta cgactttgaa aacagactgc
     2221 acgtccgtgt ccatgctgct ctggcctctc taagggaact ggtccctcag tgataaactc
     2281 cgagagaccc ctgtcccctc cacccagagt cagcactgtg aaggcagagg agaaagctct
     2341 ctagaccatc agcttttctt ctggagatca cctgtgccag ggatgtgtcc tggtgtcact
     2401 ggcatactga agattcctct tttagacgtg tagtgcggag taataaagat gaccaaatga
     2461 taacaagaag tggcctggga gggggttaag tgaccttgtt caaacacttt agttttgtga
     2521 tttattattt ttaaataaaa tcaaactaac tattca
//
