LOCUS       NM_003195               1182 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens transcription elongation factor A2 (TCEA2), transcript
            variant 1, mRNA.
ACCESSION   NM_003195
VERSION     NM_003195.6
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 1182)
  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 1182)
  AUTHORS   Fragoza,R., Das,J., Wierbowski,S.D., Liang,J., Tran,T.N., Liang,S.,
            Beltran,J.F., Rivera-Erick,C.A., Ye,K., Wang,T.Y., Yao,L., Mort,M.,
            Stenson,P.D., Cooper,D.N., Wei,X., Keinan,A., Schimenti,J.C.,
            Clark,A.G. and Yu,H.
  TITLE     Extensive disruption of protein interactions by genetic variants
            across the allele frequency spectrum in human populations
  JOURNAL   Nat Commun 10 (1), 4141 (2019)
   PUBMED   31515488
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1182)
  AUTHORS   Malinowski,J.R., Denny,J.C., Bielinski,S.J., Basford,M.A.,
            Bradford,Y., Peissig,P.L., Carrell,D., Crosslin,D.R., Pathak,J.,
            Rasmussen,L., Pacheco,J., Kho,A., Newton,K.M., Li,R., Kullo,I.J.,
            Chute,C.G., Chisholm,R.L., Jarvik,G.P., Larson,E.B., McCarty,C.A.,
            Masys,D.R., Roden,D.M., de Andrade,M., Ritchie,M.D. and
            Crawford,D.C.
  TITLE     Genetic variants associated with serum thyroid stimulating hormone
            (TSH) levels in European Americans and African Americans from the
            eMERGE Network
  JOURNAL   PLoS One 9 (12), e111301 (2014)
   PUBMED   25436638
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1182)
  AUTHORS   Yu,H., Tardivo,L., Tam,S., Weiner,E., Gebreab,F., Fan,C.,
            Svrzikapa,N., Hirozane-Kishikawa,T., Rietman,E., Yang,X.,
            Sahalie,J., Salehi-Ashtiani,K., Hao,T., Cusick,M.E., Hill,D.E.,
            Roth,F.P., Braun,P. and Vidal,M.
  TITLE     Next-generation sequencing to generate interactome datasets
  JOURNAL   Nat Methods 8 (6), 478-480 (2011)
   PUBMED   21516116
REFERENCE   5  (bases 1 to 1182)
  AUTHORS   Trembley,J.H., Hu,D., Hsu,L.C., Yeung,C.Y., Slaughter,C.,
            Lahti,J.M. and Kidd,V.J.
  TITLE     PITSLRE p110 protein kinases associate with transcription complexes
            and affect their activity
  JOURNAL   J Biol Chem 277 (4), 2589-2596 (2002)
   PUBMED   11709559
REFERENCE   6  (bases 1 to 1182)
  AUTHORS   Deloukas,P., Matthews,L.H., Ashurst,J., Burton,J., Gilbert,J.G.,
            Jones,M., Stavrides,G., Almeida,J.P., Babbage,A.K., Bagguley,C.L.,
            Bailey,J., Barlow,K.F., Bates,K.N., Beard,L.M., Beare,D.M.,
            Beasley,O.P., Bird,C.P., Blakey,S.E., Bridgeman,A.M., Brown,A.J.,
            Buck,D., Burrill,W., Butler,A.P., Carder,C., Carter,N.P.,
            Chapman,J.C., Clamp,M., Clark,G., Clark,L.N., Clark,S.Y.,
            Clee,C.M., Clegg,S., Cobley,V.E., Collier,R.E., Connor,R.,
            Corby,N.R., Coulson,A., Coville,G.J., Deadman,R., Dhami,P.,
            Dunn,M., Ellington,A.G., Frankland,J.A., Fraser,A., French,L.,
            Garner,P., Grafham,D.V., Griffiths,C., Griffiths,M.N., Gwilliam,R.,
            Hall,R.E., Hammond,S., Harley,J.L., Heath,P.D., Ho,S., Holden,J.L.,
            Howden,P.J., Huckle,E., Hunt,A.R., Hunt,S.E., Jekosch,K.,
            Johnson,C.M., Johnson,D., Kay,M.P., Kimberley,A.M., King,A.,
            Knights,A., Laird,G.K., Lawlor,S., Lehvaslaiho,M.H., Leversha,M.,
            Lloyd,C., Lloyd,D.M., Lovell,J.D., Marsh,V.L., Martin,S.L.,
            McConnachie,L.J., McLay,K., McMurray,A.A., Milne,S., Mistry,D.,
            Moore,M.J., Mullikin,J.C., Nickerson,T., Oliver,K., Parker,A.,
            Patel,R., Pearce,T.A., Peck,A.I., Phillimore,B.J.,
            Prathalingam,S.R., Plumb,R.W., Ramsay,H., Rice,C.M., Ross,M.T.,
            Scott,C.E., Sehra,H.K., Shownkeen,R., Sims,S., Skuce,C.D.,
            Smith,M.L., Soderlund,C., Steward,C.A., Sulston,J.E., Swann,M.,
            Sycamore,N., Taylor,R., Tee,L., Thomas,D.W., Thorpe,A., Tracey,A.,
            Tromans,A.C., Vaudin,M., Wall,M., Wallis,J.M., Whitehead,S.L.,
            Whittaker,P., Willey,D.L., Williams,L., Williams,S.A., Wilming,L.,
            Wray,P.W., Hubbard,T., Durbin,R.M., Bentley,D.R., Beck,S. and
            Rogers,J.
  TITLE     The DNA sequence and comparative analysis of human chromosome 20
  JOURNAL   Nature 414 (6866), 865-871 (2001)
   PUBMED   11780052
REFERENCE   7  (bases 1 to 1182)
  AUTHORS   Li,X.Y. and Green,M.R.
  TITLE     The HIV-1 Tat cellular coactivator Tat-SF1 is a general
            transcription elongation factor
  JOURNAL   Genes Dev 12 (19), 2992-2996 (1998)
   PUBMED   9765201
REFERENCE   8  (bases 1 to 1182)
  AUTHORS   Weaver,Z.A. and Kane,C.M.
  TITLE     Genomic characterization of a testis-specific TFIIS (TCEA2) gene
  JOURNAL   Genomics 46 (3), 516-519 (1997)
   PUBMED   9441762
REFERENCE   9  (bases 1 to 1182)
  AUTHORS   Umehara,T., Kida,S., Yamamoto,T. and Horikoshi,M.
  TITLE     Isolation and characterization of a cDNA encoding a new type of
            human transcription elongation factor S-II
  JOURNAL   Gene 167 (1-2), 297-302 (1995)
   PUBMED   8566795
REFERENCE   10 (bases 1 to 1182)
  AUTHORS   Kato,H., Sumimoto,H., Pognonec,P., Chen,C.H., Rosen,C.A. and
            Roeder,R.G.
  TITLE     HIV-1 Tat acts as a processivity factor in vitro in conjunction
            with cellular elongation factors
  JOURNAL   Genes Dev 6 (4), 655-666 (1992)
   PUBMED   1559613
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DB482075.1, BC018896.2 and
            CA440059.1.
            
            On Nov 23, 2018 this sequence version replaced NM_003195.5.
            
            Summary: The protein encoded by this gene is found in the nucleus,
            where it functions as an SII class transcription elongation factor.
            Elongation factors in this class are responsible for releasing RNA
            polymerase II ternary complexes from transcriptional arrest at
            template-encoded arresting sites. The encoded protein has been
            shown to interact with general transcription factor IIB, a basal
            transcription factor. Two transcript variants encoding different
            isoforms have been found for this gene. [provided by RefSeq, Jul
            2008].
            
            Transcript Variant: This variant (1) encodes the longer isoform
            (a).
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR3476690.734391.1,
                                           SRR3476690.296696.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000343484.10/ ENSP00000343515.5
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-13                DB482075.1         71-83
            14-1156             BC018896.2         1-1143
            1157-1182           CA440059.1         18-43               c
FEATURES             Location/Qualifiers
     source          1..1182
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="20"
                     /map="20q13.33"
     gene            1..1182
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /note="transcription elongation factor A2"
                     /db_xref="GeneID:6919"
                     /db_xref="HGNC:HGNC:11614"
                     /db_xref="MIM:604784"
     exon            1..187
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /inference="alignment:Splign:2.1.0"
     CDS             116..1015
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /note="isoform a is encoded by transcript variant 1;
                     transcription elongation factor TFIIS.1; transcription
                     elongation factor A protein 2; testis-specific S-II;
                     transcription elongation factor TFIIS.l; transcription
                     elongation factor S-II protein 2; transcription elongation
                     factor A (SII), 2"
                     /codon_start=1
                     /product="transcription elongation factor A protein 2
                     isoform a"
                     /protein_id="NP_003186.1"
                     /db_xref="CCDS:CCDS13553.1"
                     /db_xref="GeneID:6919"
                     /db_xref="HGNC:HGNC:11614"
                     /db_xref="MIM:604784"
                     /translation="MMGKEEEIARIARRLDKMVTKKSAEGAMDLLRELKAMPITLHLL
                     QSTRVGMSVNALRKQSSDEEVIALAKSLIKSWKKLLDASDAKARERGRGMPLPTSSRD
                     ASEAPDPSRKRPELPRAPSTPRITTFPPVPVTCDAVRNKCREMLTAALQTDHDHVAIG
                     ADCERLSAQIEECIFRDVGNTDMKYKNRVRSRISNLKDAKNPDLRRNVLCGAITPQQI
                     AVMTSEEMASDELKEIRKAMTKEAIREHQMARTGGTQTDLFTCGKCRKKNCTYTQVQT
                     RSSDEPMTTFVVCNECGNRWKFC"
     exon            188..250
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /inference="alignment:Splign:2.1.0"
     exon            251..356
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /inference="alignment:Splign:2.1.0"
     exon            357..444
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /inference="alignment:Splign:2.1.0"
     exon            445..575
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /inference="alignment:Splign:2.1.0"
     exon            576..632
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /inference="alignment:Splign:2.1.0"
     exon            633..787
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /inference="alignment:Splign:2.1.0"
     exon            788..934
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /inference="alignment:Splign:2.1.0"
     exon            935..1006
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /inference="alignment:Splign:2.1.0"
     exon            1007..1182
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1162..1167
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /note="hexamer: ATTAAA"
     polyA_site      1182
                     /gene="TCEA2"
                     /gene_synonym="TFIIS"
                     /note="major polyA site"
ORIGIN      
        1 gcggcggggc tgcgtcggct gcggcgggtg tgggaggtgg cgacggccgg ggccggggtc
       61 ctgcccggct gcggaggcgg gcgcgacggg cgcgggggtc gctgctcctg aggcgatgat
      121 gggcaaggaa gaggagattg cgcggatcgc ccggaggctg gacaagatgg tgaccaagaa
      181 gagcgcggag ggagccatgg atttgctgcg ggagctgaag gccatgccta tcacgctgca
      241 cctgctccag tccacccgag tcgggatgtc tgtcaacgcc cttcggaagc agagctcgga
      301 tgaggaggtc attgcactgg ccaagtctct catcaagtcc tggaagaagc tcctggatgc
      361 ttccgatgcc aaagccaggg agcgggggag gggcatgcct ctgcccacgt cctcgaggga
      421 tgcctcagag gccccggatc ccagccgcaa gaggccggag ctgcccaggg caccgtcgac
      481 tccgaggatc accacatttc ctccggtgcc tgtcacctgt gatgccgtgc gcaacaagtg
      541 ccgcgagatg ctgaccgctg ccctgcagac ggaccatgac cacgtggcca tcggtgcgga
      601 ctgcgagcgc ctgtcggctc agatcgagga atgcatcttc cgggacgttg gaaacacaga
      661 catgaagtat aagaaccgtg tacggagtcg tatctccaac ctgaaggatg ccaagaaccc
      721 tgacctgcgg cggaatgtgc tgtgtggggc cataacaccc cagcagatcg ctgtgatgac
      781 ctcagaggag atggccagtg atgagctgaa ggagatccgt aaggccatga ccaaggaggc
      841 catccgagag caccagatgg cccgcactgg cggcacgcag acagacctgt tcacctgcgg
      901 caagtgcagg aaaaagaact gcacctacac acaggtgcag acccgcagct ctgatgagcc
      961 catgaccacc tttgttgtct gcaacgagtg tggaaaccgc tggaagttct gctgacccct
     1021 cgtgtagatg tgctgcagcc ttgggccctc cccggcccac gtcctccgtt gacacagctt
     1081 ctctggagac cctagaaggc ggcatgtcct gccctcaacc tgcctgcctg gattgcacct
     1141 ttctgccctt tccccctcat tattaaatgt ttctttttgc ca
//
