LOCUS       NM_001297663            2718 bp    mRNA    linear   PRI 21-SEP-2024
DEFINITION  Homo sapiens tetratricopeptide repeat domain 39A (TTC39A),
            transcript variant 4, mRNA.
ACCESSION   NM_001297663 XM_005270643
VERSION     NM_001297663.2
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 2718)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   2  (bases 1 to 2718)
  AUTHORS   Wang,A.G., Yoon,S.Y., Oh,J.H., Jeon,Y.J., Kim,M., Kim,J.M.,
            Byun,S.S., Yang,J.O., Kim,J.H., Kim,D.G., Yeom,Y.I., Yoo,H.S.,
            Kim,Y.S. and Kim,N.S.
  TITLE     Identification of intrahepatic cholangiocarcinoma related genes by
            comparison with normal liver tissues using expressed sequence tags
  JOURNAL   Biochem Biophys Res Commun 345 (3), 1022-1032 (2006)
   PUBMED   16712791
REFERENCE   3  (bases 1 to 2718)
  AUTHORS   Kuang,W.W., Thompson,D.A., Hoch,R.V. and Weigel,R.J.
  TITLE     Differential screening and suppression subtractive hybridization
            identified genes differentially expressed in an estrogen
            receptor-positive breast carcinoma cell line
  JOURNAL   Nucleic Acids Res 26 (4), 1116-1123 (1998)
   PUBMED   9461476
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL671986.7 and AL162430.15.
            
            On Aug 4, 2020 this sequence version replaced NM_001297663.1.
            
            Transcript Variant: This variant (4) differs in the 5' UTR, lacks a
            portion of the 5' coding region, and initiates translation at an
            alternate start codon, compared to variant 1. The encoded isoform
            (4) has a distinct N-terminus and is shorter than isoform 1.
            
            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 :: SRR14038195.2243418.1, AK301587.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000680483.1/ ENSP00000505859.1
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-126               AL671986.7         24522-24647         c
            127-231             AL671986.7         15806-15910         c
            232-363             AL671986.7         6897-7028           c
            364-440             AL671986.7         6204-6280           c
            441-508             AL671986.7         5339-5406           c
            509-573             AL671986.7         3346-3410           c
            574-673             AL162430.15        209853-209952       c
            674-739             AL162430.15        208957-209022       c
            740-848             AL162430.15        206960-207068       c
            849-916             AL162430.15        206382-206449       c
            917-976             AL162430.15        206233-206292       c
            977-1138            AL162430.15        205448-205609       c
            1139-1230           AL162430.15        199955-200046       c
            1231-1351           AL162430.15        198267-198387       c
            1352-1463           AL162430.15        194390-194501       c
            1464-1578           AL162430.15        193881-193995       c
            1579-1695           AL162430.15        192715-192831       c
            1696-2718           AL162430.15        191134-192156       c
FEATURES             Location/Qualifiers
     source          1..2718
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1p32.3"
     gene            1..2718
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /note="tetratricopeptide repeat domain 39A"
                     /db_xref="GeneID:22996"
                     /db_xref="HGNC:HGNC:18657"
                     /db_xref="MIM:619885"
     exon            1..126
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     CDS             86..1819
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /note="isoform 4 is encoded by transcript variant 4;
                     tetratricopeptide repeat protein 39A; TPR repeat protein
                     39A; differentially expressed in MCF7 with estradiol
                     protein 6; testicular tissue protein Li 213;
                     differentially expressed in MCF-7 with estradiol protein
                     6"
                     /codon_start=1
                     /product="tetratricopeptide repeat protein 39A isoform 4"
                     /protein_id="NP_001284592.1"
                     /db_xref="CCDS:CCDS90953.1"
                     /db_xref="GeneID:22996"
                     /db_xref="HGNC:HGNC:18657"
                     /db_xref="MIM:619885"
                     /translation="MTSAGGAPGALPAGTPESSLHEALDQCMTALDLFLTNQFSEALS
                     YLKPRTKESMYHSLTYATILEMQAMMTFDPQDILLAGNMMKEAQMLCQRHRRKSSVTD
                     SFSSLVNRPTLGQFTEEEIHAEVCYAECLLQRAALTFLQDENMVSFIKGGIKVRNSYQ
                     TYKELDSLVQSSQYCKGENHPHFEGGVKLGVGAFNLTLSMLPTRILRLLEFVGFSGNK
                     DYGLLQLEEGASGHSFRSVLCVMLLLCYHTFLTFVLGTGNVNIEEAEKLLKPYLNRYP
                     KGAIFLFFAGRIEVIKGNIDAAIRRFEECCEAQQHWKQFHHMCYWELMWCFTYKGQWK
                     MSYFYADLLSKENCWSKATYIYMKAAYLSMFGKEDHKPFGDDEVELFRAVPGLKLKIA
                     GKSLPTEKFAIRKSRRYFSSNPISLPVPALEMMYIWNGYAVIGKQPKLTDGILEIITK
                     AEEMLEKGPENEYSVDDECLVKLLKGLCLKYLGRVQEAEENFRSISANEKKIKYDHYL
                     IPNALLELALLLMEQDRNEEAIKLLESAKQNYKNYSMESRTHFRIQAATLQAKSSLEN
                     SSRSMVSSVSL"
     exon            127..231
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            232..363
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            364..440
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            441..508
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            509..573
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            574..673
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            674..739
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            740..848
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            849..916
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            917..976
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            977..1138
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            1139..1230
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            1231..1351
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            1352..1463
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            1464..1578
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            1579..1695
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     exon            1696..2718
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /inference="alignment:Splign:2.1.0"
     polyA_site      2166
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
     regulatory      2643..2648
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /note="hexamer: CATAAA"
     polyA_site      2674
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /note="major polyA site"
     polyA_site      2718
                     /gene="TTC39A"
                     /gene_synonym="C1orf34; DEME-6"
                     /note="major polyA site"
ORIGIN      
        1 acagcgcccg gctcggggtt gcggcggcag cacctgggcc gcgattggcg tccggctggg
       61 gcagcgccgc ccgcgcccct cggcgatgac ctcggctggc ggcgccccag gagccctgcc
      121 cgcggggact cctgagagca gcctccatga ggccctggac cagtgcatga ccgccctgga
      181 cctcttcctc accaaccagt tctcagaagc actcagctac ctcaagccca gaaccaagga
      241 aagcatgtac cactcactga catatgccac catcctggag atgcaggcca tgatgacctt
      301 tgaccctcag gacatcctgc ttgccggcaa catgatgaag gaggcacaga tgctgtgtca
      361 gaggcaccgg aggaagtctt ctgtaacaga ttccttcagc agcctggtga accgccccac
      421 gctgggccaa ttcactgaag aggaaatcca cgctgaggtc tgctatgcag agtgcctgct
      481 gcagcgagca gccctgacct tcctgcagga cgagaacatg gtgagcttca tcaaaggcgg
      541 catcaaagtt cgaaacagct accagaccta caaggagctg gacagccttg ttcagtcctc
      601 acaatactgc aagggtgaga accacccgca ctttgaagga ggagtgaagc ttggtgtagg
      661 ggccttcaac ctgacactgt ccatgcttcc tactaggatc ctgaggctgt tggagtttgt
      721 ggggttttca ggaaacaagg actatgggct gctgcagctg gaggagggag cgtcagggca
      781 cagcttccgc tctgtgctct gtgtcatgct cctgctgtgc taccacacct tcctcacctt
      841 cgtgctcggt actgggaacg tcaacatcga ggaggccgag aagctcttga agccctacct
      901 gaaccggtac cctaagggtg ccatcttcct gttctttgca gggaggattg aagtcattaa
      961 aggcaacatt gatgcagcca tccggcgttt cgaggagtgc tgtgaggccc agcagcactg
     1021 gaagcagttc caccacatgt gctactggga gctgatgtgg tgcttcacct acaagggcca
     1081 gtggaagatg tcctacttct acgccgacct gctcagcaag gagaactgct ggtccaaggc
     1141 cacctacatt tacatgaagg ccgcctacct cagcatgttt gggaaggagg accacaagcc
     1201 gttcggggac gacgaagtgg aattatttcg agctgtgcca ggcctgaagc tcaagattgc
     1261 tgggaaatct ctacccacag agaagtttgc catccggaag tcccggcgct acttctcctc
     1321 caaccctatc tcgctgccag tgcctgctct ggaaatgatg tacatctgga acggctacgc
     1381 cgtgattggg aagcagccga aactcacgga tgggatactt gagattatca ctaaggctga
     1441 agagatgctg gagaaaggcc cagagaacga gtactcagtg gatgacgagt gcttggtgaa
     1501 attgttgaaa ggcctgtgtc tgaaatacct gggccgtgtc caggaggccg aggagaattt
     1561 taggagcatc tctgccaatg aaaagaagat taaatatgac cactacttga tcccaaacgc
     1621 cctgctggag ctggccctgc tgcttatgga gcaagacaga aacgaagagg ccatcaaact
     1681 tttggaatct gccaagcaaa actacaagaa ttactccatg gagtcaagga cacactttcg
     1741 aatccaggca gccacactcc aagccaagtc ttccctagag aacagcagca gatccatggt
     1801 ctcatcagtg tccttgtagc tttgtgcagc agttccgggc tggaagacag agacagctgg
     1861 acagagctcc tgaaaacatt tcaaaatacc ccctccccct gccctgccct gcctttgggg
     1921 tccaccggca ctccagttgg atggcacaac atagtgtatc cgtgcagaag ccgagctggc
     1981 attttcacca gtgtagccaa gggcctttgc caagggcaga gcaggtggag ccctctgcct
     2041 gccctatcac acatacgggt acttgctttt cactgtgatg tttaagagaa tgtatgaaca
     2101 gtttacattt tccttagaaa tacattgatg ggatcacagt tggctttaaa aaccaacaac
     2161 aatcaaccac ctgtaagtct ttgtcttcac ctattatcat ctggaggtaa atctctttat
     2221 atgatgatgc caaagggcaa attgcttttc aaattcagca agttctcagc ttgtgtgacg
     2281 gaaggtcctt cagaggacct gaggaatgcc tgggagaggc taagcctcag gcttcaatgc
     2341 ttctggggtt gggcatgagg atgtacacag acacccacta ccttactact cacacttcat
     2401 ttcactcctt ttgtaaattt ccaatttaaa aatcaagcac gtctttttag tgagataaaa
     2461 tctgagctct tctgtagaaa aatcaatctc taccagtaga aaatgccagg gcttgatgga
     2521 agagctgtgt agccctttct atgccaaagc caggaaattt ggggggcagg aggaggttct
     2581 cagaatccag tctgtatctt tgctgtatgc caaactgaaa ccactgggaa taatttatga
     2641 aacataaaaa tcttctgtac ttcactccaa ggtacatttg cttactgaca gcatttttgt
     2701 taaaactgtt attcttga
//
