LOCUS       NM_024116               1632 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens TATA-box binding protein associated factor, RNA
            polymerase I subunit D (TAF1D), transcript variant 1, mRNA.
ACCESSION   NM_024116
VERSION     NM_024116.4
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 1632)
  AUTHORS   Zhang,X., Zhan,S., Guan,X., Zhang,Y., Lu,J., Yu,Y., Jin,Y.,
            Yang,Y., Chu,P., Hong,E., Yang,H., Ren,H., Geng,D., Wang,Y.,
            Zhou,P., Guo,Y. and Chang,Y.
  TITLE     TAF1D promotes proliferation by transcriptionally activating G2/M
            phase-related genes in MYCN-amplified neuroblastoma
  JOURNAL   Cancer Sci 114 (7), 2860-2870 (2023)
   PUBMED   37094904
  REMARK    GeneRIF: TAF1D promotes proliferation by transcriptionally
            activating G2/M phase-related genes in MYCN-amplified
            neuroblastoma.
REFERENCE   2  (bases 1 to 1632)
  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   3  (bases 1 to 1632)
  AUTHORS   Vinayagam,A., Stelzl,U., Foulle,R., Plassmann,S., Zenkner,M.,
            Timm,J., Assmus,H.E., Andrade-Navarro,M.A. and Wanker,E.E.
  TITLE     A directed protein interaction network for investigating
            intracellular signal transduction
  JOURNAL   Sci Signal 4 (189), rs8 (2011)
   PUBMED   21900206
REFERENCE   4  (bases 1 to 1632)
  AUTHORS   Gorski,J.J., Pathak,S., Panov,K., Kasciukovic,T., Panova,T.,
            Russell,J. and Zomerdijk,J.C.
  TITLE     A novel TBP-associated factor of SL1 functions in RNA polymerase I
            transcription
  JOURNAL   EMBO J 26 (6), 1560-1568 (2007)
   PUBMED   17318177
  REMARK    GeneRIF: TAF(I)41 (MGC5306) is integral to transcriptionally active
            SL1 and plays a role in Pol I recruitment and, therefore,
            preinitiation complex formation in vivo.
REFERENCE   5  (bases 1 to 1632)
  AUTHORS   Wang,L., Bhattacharyya,N., Chelsea,D.M., Escobar,P.F. and
            Banerjee,S.
  TITLE     A novel nuclear protein, MGC5306 interacts with DNA polymerase beta
            and has a potential role in cellular phenotype
  JOURNAL   Cancer Res 64 (21), 7673-7677 (2004)
   PUBMED   15520167
  REMARK    GeneRIF: An antigrowth activity and modulations of cell cycle
            events are identified in cells expressing siRNAMGC5306.
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AP001273.4, BC001972.1 and BQ774057.1.
            
            On May 17, 2019 this sequence version replaced NM_024116.3.
            
            Summary: TAF1D is a member of the SL1 complex, which includes TBP
            (MIM 600075) and TAF1A (MIM 604903), TAF1B (MIM 604904), and TAF1C
            (MIM 604905), and plays a role in RNA polymerase I transcription
            (Wang et al., 2004 [PubMed 15520167]; Gorski et al., 2007 [PubMed
            17318177]).[supplied by OMIM, Jun 2009].
            
            Transcript Variant: This variant (1) represents the shortest
            transcript and encodes the functional protein.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR1803615.71348.1,
                                           SRR7346977.206228.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000448108.7/ ENSP00000410409.2
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-174               AP001273.4         13650-13823         c
            175-1058            BC001972.1         156-1039
            1059-1270           BQ774057.1         12-223              c
            1271-1632           AP001273.4         7895-8256           c
FEATURES             Location/Qualifiers
     source          1..1632
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11q21"
     gene            1..1632
                     /gene="TAF1D"
                     /gene_synonym="JOSD3; RAFI41; TAF(I)41; TAFI41"
                     /note="TATA-box binding protein associated factor, RNA
                     polymerase I subunit D"
                     /db_xref="GeneID:79101"
                     /db_xref="HGNC:HGNC:28759"
                     /db_xref="MIM:612823"
     exon            1..174
                     /gene="TAF1D"
                     /gene_synonym="JOSD3; RAFI41; TAF(I)41; TAFI41"
                     /inference="alignment:Splign:2.1.0"
     exon            175..269
                     /gene="TAF1D"
                     /gene_synonym="JOSD3; RAFI41; TAF(I)41; TAFI41"
                     /inference="alignment:Splign:2.1.0"
     CDS             202..1038
                     /gene="TAF1D"
                     /gene_synonym="JOSD3; RAFI41; TAF(I)41; TAFI41"
                     /note="Josephin domain containing 3; TBP-associated factor
                     1D; TATA box-binding protein-associated factor 1D;
                     transcription initiation factor SL1/TIF-IB subunit D; RNA
                     polymerase I-specific TBP-associated factor 41 kDa; TATA
                     box binding protein (TBP)-associated factor, RNA
                     polymerase I, D, 41kDa; TATA-box binding protein
                     associated factor, RNA polymerase I, D"
                     /codon_start=1
                     /product="TATA box-binding protein-associated factor RNA
                     polymerase I subunit D"
                     /protein_id="NP_077021.1"
                     /db_xref="CCDS:CCDS8293.1"
                     /db_xref="GeneID:79101"
                     /db_xref="HGNC:HGNC:28759"
                     /db_xref="MIM:612823"
                     /translation="MDKSGIDSLDHVTSDAVELANRSDNSSDSSLFKTQCIPYSPKGE
                     KRNPIRKFVRTPESVHASDSSSDSSFEPIPLTIKAIFERFKNRKKRYKKKKKRRYQPT
                     GRPRGRPEGRRNPIYSLIDKKKQFRSRGSGFPFLESENEKNAPWRKILTFEQAVARGF
                     FNYIEKLKYEHHLKESLKQMNVGEDLENEDFDSRRYKFLDDDGSISPIEESTAEDEDA
                     THLEDNECDIKLAGDSFIVSSEFPVRLSVYLEEEDITEEAALSKKRATKAKNTGQRGL
                     KM"
     exon            270..660
                     /gene="TAF1D"
                     /gene_synonym="JOSD3; RAFI41; TAF(I)41; TAFI41"
                     /inference="alignment:Splign:2.1.0"
     exon            661..836
                     /gene="TAF1D"
                     /gene_synonym="JOSD3; RAFI41; TAF(I)41; TAFI41"
                     /inference="alignment:Splign:2.1.0"
     exon            837..894
                     /gene="TAF1D"
                     /gene_synonym="JOSD3; RAFI41; TAF(I)41; TAFI41"
                     /inference="alignment:Splign:2.1.0"
     exon            895..1632
                     /gene="TAF1D"
                     /gene_synonym="JOSD3; RAFI41; TAF(I)41; TAFI41"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1240..1245
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TAF1D"
                     /gene_synonym="JOSD3; RAFI41; TAF(I)41; TAFI41"
                     /note="hexamer: ATTAAA"
     regulatory      1257..1262
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TAF1D"
                     /gene_synonym="JOSD3; RAFI41; TAF(I)41; TAFI41"
                     /note="hexamer: AATACA"
     polyA_site      1270
                     /gene="TAF1D"
                     /gene_synonym="JOSD3; RAFI41; TAF(I)41; TAFI41"
                     /note="major polyA site"
     polyA_site      1279
                     /gene="TAF1D"
                     /gene_synonym="JOSD3; RAFI41; TAF(I)41; TAFI41"
ORIGIN      
        1 ccttttcttc cgcacggttg gaggaggtcg gctggttatc gggagttgga gggctgaggt
       61 cgggagggtg gtgtgtacag agctctagga caccaggcca gtcgcgggtt ttgggccgag
      121 gcctgggtta caagcagcaa gtgcgcggtt ggggccactg cgaggccgtt ttagaaaact
      181 gtttaaaaca aagagcaatt gatggataaa tcaggaatag attctcttga ccatgtgaca
      241 tctgatgctg tggaacttgc aaatcgaagt gataactctt ctgatagcag cttatttaaa
      301 actcagtgta tcccttactc acctaaaggg gagaaaagaa accccattcg aaaatttgtt
      361 cgtacacctg aaagtgttca cgcaagtgat tcatcaagtg actcatcttt tgaaccaata
      421 ccattgacta taaaagctat ttttgaaaga ttcaagaaca ggaaaaagag atataaaaaa
      481 aagaaaaaga ggaggtacca gccaacagga agaccacggg gaagaccaga aggaaggaga
      541 aatcctatat actcactaat agataagaag aaacaattta gaagcagagg atctggcttc
      601 ccatttttag aatcagagaa tgaaaaaaac gcaccttgga gaaaaatttt aacgtttgag
      661 caagctgttg caagaggatt ttttaactat attgaaaaac tgaagtatga acaccacctg
      721 aaagaatcat tgaagcaaat gaatgttggt gaagatttag aaaatgaaga ttttgacagt
      781 cgtagataca aatttttgga tgatgatgga tccatttctc ctattgagga gtcaacagca
      841 gaggatgagg atgcaacaca tcttgaagat aacgaatgtg atatcaaatt ggcaggggat
      901 agtttcatag taagttctga attccctgta agactgagtg tatacttaga agaagaggat
      961 attactgaag aagctgcttt gtctaaaaag agagctacaa aagccaaaaa tactggacag
     1021 agaggcctga aaatgtgaca ggatcatgaa tgtcaaaggt gaagcatata gaaaaaacga
     1081 cttcatagaa atgaataaag ataaatgtgg atatatgtac cagtctggtg gtgaagaaat
     1141 tctgaaaccc agaactttat aacaagaaaa aaaattttta accctgtgaa gaagtttgtg
     1201 aaagaaactt gtgaagtagt aataattaga aaaaaaacca ttaaaacacc agagaaaata
     1261 catagaaaaa tttgagaaat tgtcatttga tttctgaata agagcttaca ggtgtcctgt
     1321 gagtattgaa acaatgaaat gtagtgattt taattttgaa aagaaaatct taaagtaact
     1381 tgacacccaa ccatcttgaa gaggggattt gaaatgctgt aattttatcc cagctttgtt
     1441 cagccatgac aagtgacctg tcagatgctt agtattgtaa taacctcatt tccctttcca
     1501 aatttagagt atctttaata ctattttttt tagacagagt ctcgatctgt cacccaggct
     1561 gtagtgcaat ggccgcagtc ttggcttact gcaacctcca tctcccgggt tcaagcgatt
     1621 ctgcctcagc ct
//
