LOCUS       NM_021228               4222 bp    mRNA    linear   PRI 20-AUG-2024
DEFINITION  Homo sapiens SR-related CTD associated factor 1 (SCAF1), mRNA.
ACCESSION   NM_021228
VERSION     NM_021228.3
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 4222)
  AUTHORS   Vercellino,I. and Sazanov,L.A.
  TITLE     SCAF1 drives the compositional diversity of mammalian respirasomes
  JOURNAL   Nat Struct Mol Biol 31 (7), 1061-1071 (2024)
   PUBMED   38575788
  REMARK    GeneRIF: SCAF1 drives the compositional diversity of mammalian
            respirasomes.
REFERENCE   2  (bases 1 to 4222)
  AUTHORS   Martinez,S., Wu,S., Geuenich,M., Malik,A., Weber,R., Woo,T.,
            Zhang,A., Jang,G.H., Dervovic,D., Al-Zahrani,K.N., Tsai,R.,
            Fodil,N., Gros,P., Gallinger,S., Neely,G.G., Notta,F., Sendoel,A.,
            Campbell,K., Elling,U. and Schramek,D.
  TITLE     In vivo CRISPR screens reveal SCAF1 and USP15 as drivers of
            pancreatic cancer
  JOURNAL   Nat Commun 15 (1), 5266 (2024)
   PUBMED   38902237
  REMARK    GeneRIF: In vivo CRISPR screens reveal SCAF1 and USP15 as drivers
            of pancreatic cancer.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4222)
  AUTHORS   Kobayashi,M., Watanabe,K., Suzuki,T., Dohmae,N., Fujiyoshi,M.,
            Uchida,M., Suzuki,T., Igarashi,K. and Ishii,I.
  TITLE     Analysis of the acrolein-modified sites of apolipoprotein B-100 in
            LDL
  JOURNAL   Biochim Biophys Acta Mol Cell Biol Lipids 1866 (1), 158809 (2021)
   PUBMED   32919080
  REMARK    GeneRIF: Analysis of the acrolein-modified sites of apolipoprotein
            B-100 in LDL.
REFERENCE   4  (bases 1 to 4222)
  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   5  (bases 1 to 4222)
  AUTHORS   Adamopoulos,P.G., Raptis,G.D., Kontos,C.K. and Scorilas,A.
  TITLE     Discovery and expression analysis of novel transcripts of the human
            SR-related CTD-associated factor 1 (SCAF1) gene in human cancer
            cells using Next-Generation Sequencing
  JOURNAL   Gene 670, 155-165 (2018)
   PUBMED   29787824
  REMARK    GeneRIF: Study describes the discovery and cloning of fifteen novel
            splice variants of SCAF1 gene in cancer cells comprising a total of
            nine novel alternative splicing events between the annotated exons
            of the gene, producing seven novel SCAF1 transcripts with
            open-reading frames, and eight novel SCAF1 transcripts with
            premature termination codons that are likely long non-coding RNAs.
            Additionally, a novel 3' UTR was discovered.
REFERENCE   6  (bases 1 to 4222)
  AUTHORS   Talmud,P.J., Drenos,F., Shah,S., Shah,T., Palmen,J., Verzilli,C.,
            Gaunt,T.R., Pallas,J., Lovering,R., Li,K., Casas,J.P., Sofat,R.,
            Kumari,M., Rodriguez,S., Johnson,T., Newhouse,S.J., Dominiczak,A.,
            Samani,N.J., Caulfield,M., Sever,P., Stanton,A., Shields,D.C.,
            Padmanabhan,S., Melander,O., Hastie,C., Delles,C., Ebrahim,S.,
            Marmot,M.G., Smith,G.D., Lawlor,D.A., Munroe,P.B., Day,I.N.,
            Kivimaki,M., Whittaker,J., Humphries,S.E. and Hingorani,A.D.
  CONSRTM   ASCOT investigators; NORDIL investigators; BRIGHT Consortium
  TITLE     Gene-centric association signals for lipids and apolipoproteins
            identified via the HumanCVD BeadChip
  JOURNAL   Am J Hum Genet 85 (5), 628-642 (2009)
   PUBMED   19913121
  REMARK    GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
REFERENCE   7  (bases 1 to 4222)
  AUTHORS   Leoutsakou,T., Talieri,M. and Scorilas,A.
  TITLE     Expression analysis and prognostic significance of the SRA1 gene,
            in ovarian cancer
  JOURNAL   Biochem Biophys Res Commun 344 (2), 667-674 (2006)
   PUBMED   16631123
  REMARK    GeneRIF: Our results suggest that SRA1 is associated with cancer
            progression and may possibly be characterized as a new marker of
            unfavorable prognosis for ovarian cancer.
REFERENCE   8  (bases 1 to 4222)
  AUTHORS   Katsarou,M.E., Papakyriakou,A., Katsaros,N. and Scorilas,A.
  TITLE     Expression of the C-terminal domain of novel human SR-A1 protein:
            interaction with the CTD domain of RNA polymerase II
  JOURNAL   Biochem Biophys Res Commun 334 (1), 61-68 (2005)
   PUBMED   15992770
REFERENCE   9  (bases 1 to 4222)
  AUTHORS   Mathioudaki,K., Leotsakou,T., Papadokostopoulou,A., Paraskevas,E.,
            Ardavanis,A., Talieri,M. and Scorilas,A.
  TITLE     SR-A1, a member of the human pre-mRNA splicing factor family, and
            its expression in colon cancer progression
  JOURNAL   Biol Chem 385 (9), 785-790 (2004)
   PUBMED   15493872
  REMARK    GeneRIF: This is the first study that examines the expression of
            the novel gene SR-A1 in colon cancer progression.
REFERENCE   10 (bases 1 to 4222)
  AUTHORS   Scorilas,A., Kyriakopoulou,L., Katsaros,D. and Diamandis,E.P.
  TITLE     Cloning of a gene (SR-A1), encoding for a new member of the human
            Ser/Arg-rich family of pre-mRNA splicing factors: overexpression in
            aggressive ovarian cancer
  JOURNAL   Br J Cancer 85 (2), 190-198 (2001)
   PUBMED   11461075
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC011495.8.
            
            On Nov 23, 2018 this sequence version replaced NM_021228.2.
            
            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 :: AK024444.1, SRR9304713.196074.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000360565.8/ ENSP00000353769.2
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-34                AC011495.8         68019-68052
            35-148              AC011495.8         70831-70944
            149-206             AC011495.8         71164-71221
            207-301             AC011495.8         71918-72012
            302-402             AC011495.8         72336-72436
            403-518             AC011495.8         72525-72640
            519-3356            AC011495.8         76678-79515
            3357-3439           AC011495.8         80159-80241
            3440-3658           AC011495.8         80462-80680
            3659-3787           AC011495.8         83571-83699
            3788-4222           AC011495.8         84018-84452
FEATURES             Location/Qualifiers
     source          1..4222
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="19"
                     /map="19q13.33"
     gene            1..4222
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /note="SR-related CTD associated factor 1"
                     /db_xref="GeneID:58506"
                     /db_xref="HGNC:HGNC:30403"
                     /db_xref="MIM:617264"
     exon            1..34
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /inference="alignment:Splign:2.1.0"
     exon            35..148
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /inference="alignment:Splign:2.1.0"
     CDS             41..3979
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /note="serine arginine-rich pre-mRNA splicing factor
                     SR-A1; SCAF; SR-related-CTD-associated factor; SR-related
                     and CTD-associated factor 1; SR-related C-terminal
                     domain-associated factor 1"
                     /codon_start=1
                     /product="splicing factor, arginine/serine-rich 19"
                     /protein_id="NP_067051.2"
                     /db_xref="CCDS:CCDS33074.1"
                     /db_xref="GeneID:58506"
                     /db_xref="HGNC:HGNC:30403"
                     /db_xref="MIM:617264"
                     /translation="MEEEDESRGKTEESGEDRGDGPPDRDPTLSPSAFILRAIQQAVG
                     SSLQGDLPNDKDGSRCHGLRWRRCRSPRSEPRSQESGGTDTATVLDMATDSFLAGLVS
                     VLDPPDTWVPSRLDLRPGESEDMLELVAEVRIGDRDPIPLPVPSLLPRLRAWRTGKTV
                     SPQSNSSRPTCARHLTLGTGDGGPAPPPAPSSASSSPSPSPSSSSPSPPPPPPPPAPP
                     APPAPRFDIYDPFHPTDEAYSPPPAPEQKYDPFEPTGSNPSSSAGTPSPEEEEEEEEE
                     EEEEEEDEEEEEGLSQSISRISETLAGIYDDNSLSQDFPGDESPRPDAQPTQPTPAPG
                     TPPQVDSTRADGAMRRRVFVVGTEAEACREGKVSVEVVTAGGAALPPPLLPPGDSEIE
                     EGEIVQPEEEPRLALSLFRPGGRAARPTPAASATPTAQPLPQPPAPRAPEGDDFLSLH
                     AESDGEGALQVDLGEPAPAPPAADSRWGGLDLRRKILTQRRERYRQRSPSPAPAPAPA
                     AAAGPPTRKKSRRERKRSGEAKEAASSSSGTQPAPPAPASPWDSKKHRSRDRKPGSHA
                     SSSARRRSRSRSRSRSTRRRSRSTDRRRGGSRRSRSREKRRRRRRSASPPPATSSSSS
                     SRRERHRGKHRDGGGSKKKKKRSRSRGEKRSGDGSEKAPAPAPPPSGSTSCGDRDSRR
                     RGAVPPSIQDLTDHDLFAIKRTITVGRLDKSDPRGPSPAPASSPKREVLYDSEGLSGE
                     ERGGKSSQKDRRRSGAASSSSSSREKGSRRKALDGGDRDRDRDRDRDRDRSSKKARPP
                     KESAPSSGPPPKPPVSSGSGSSSSSSSCSSRKVKLQSKVAVLIREGVSSTTPAKDAAS
                     AGLGSIGVKFSRDRESRSPFLKPDERAPTEMAKAAPGSTKPKKTKVKAKAGAKKTKGT
                     KGKTKPSKTRKKVRSGGGSGGSGGQVSLKKSKADSCSQAAGTKGAEETSWSGEERAAK
                     VPSTPPPKAAPPPPALTPDSQTVDSSCKTPEVSFLPEEATEEAGVRGGAEEEEEEEEE
                     EEEEEEEEEQQPATTTATSTAAAAPSTAPSAGSTAGDSGAEDGPASRVSQLPTLPPPM
                     PWNLPAGVDCTTSGVLALTALLFKMEEANLASRAKAQELIQATNQILSHRKPPSSLGM
                     TPAPVPTSLGLPPGPSSYLLPGSLPLGGCGSTPPTPTGLAATSDKREGSSSSEGRGDT
                     DKYLKKLHTQERAVEEVKLAIKPYYQKKDITKEEYKDILRKAVHKICHSKSGEINPVK
                     VSNLVRAYVQRYRYFRKHGRKPGDPPGPPRPPKEPGPPDKGGPGLPLPPL"
     exon            149..206
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /inference="alignment:Splign:2.1.0"
     exon            207..301
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /inference="alignment:Splign:2.1.0"
     exon            302..402
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /inference="alignment:Splign:2.1.0"
     exon            403..518
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /inference="alignment:Splign:2.1.0"
     exon            519..3356
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /inference="alignment:Splign:2.1.0"
     exon            3357..3439
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /inference="alignment:Splign:2.1.0"
     exon            3440..3658
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /inference="alignment:Splign:2.1.0"
     exon            3659..3787
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /inference="alignment:Splign:2.1.0"
     exon            3788..4222
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4200..4205
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /note="hexamer: ATTAAA"
     polyA_site      4222
                     /gene="SCAF1"
                     /gene_synonym="SRA1"
                     /note="major polyA site"
ORIGIN      
        1 gcgccggggc cggagccgca gcccgagcgg cggggtgacc atggaggaag aagatgagtc
       61 tcgagggaag acagaggagt cgggggagga tcggggcgat ggtccgccag acagagaccc
      121 cacgctttct ccttctgcct ttatcctgcg agccatccag caggctgtgg gaagctccct
      181 gcagggggac ctgcccaatg ataaagatgg ctctcggtgt catggccttc gatggcggcg
      241 ctgccggagt ccacggtcag agccccgttc ccaggaatca gggggcactg acacggctac
      301 tgtgttggac atggccacgg acagcttcct cgcagggctg gtgagtgtcc tggatccccc
      361 ggatacctgg gttcccagcc gcctggacct gcggcctggc gaaagtgagg acatgctgga
      421 gctggtggct gaggtccgaa tcggggacag agatcccatc cctctgcctg tgcccagcct
      481 gctgccccgt ctcagggcct ggaggacggg caaaacggtt tctccacagt cgaactcctc
      541 taggcccacc tgtgcccgtc acctcacctt gggcacggga gacgggggcc ctgccccacc
      601 ccctgccccc tcctctgcat cctcctcccc ttccccttct ccctcatctt cctccccttc
      661 ccctccccca cccccaccgc cccctgcacc cccagcccca cctgcccccc gattcgatat
      721 ctatgacccc ttccacccca ccgacgaggc ctactctcca ccgcctgctc cggagcaaaa
      781 gtacgaccct tttgagccca ccggctccaa ccccagctca tcagcgggga ccccctcacc
      841 tgaggaggaa gaggaggagg aagaggaaga agaagaggaa gaggaagacg aggaggagga
      901 ggaaggcctg tcccagagca tcagccgcat ctcggagacc ctggcgggca tctacgatga
      961 caacagcctg agccaggact tcccaggtga cgagagcccc cgcccggacg cgcagcccac
     1021 acagccgact cccgcccctg gaacgccgcc ccaggtggac tccacccggg ctgatggagc
     1081 catgcgccgg cgggtcttcg tggtggggac cgaggcagag gcttgtcggg aaggcaaggt
     1141 ctcggtggag gtggtgaccg ctggtggagc cgccctcccg ccgcccctgc tgccgcccgg
     1201 cgactcggag atcgaggaag gggagatcgt ccagccggag gaggagccca ggctggcgct
     1261 gtccctcttc cgccccggcg gccgggccgc ccggcctaca ccggccgcct cggccacccc
     1321 cacggcccag ccccttcctc agcctcccgc tccgcgggcc cccgaggggg acgacttctt
     1381 gtccctgcat gcggagtcgg acggcgaggg cgccctgcag gtggacctag gggagccggc
     1441 tcccgcgccg cccgccgccg actcgcgctg gggcggcctg gacctgcgcc gcaagatcct
     1501 gacccaacgg cgggagcgct accgccagcg ctcgccctcc ccggcgcccg cgcccgcccc
     1561 ggccgccgct gctggtccgc ccacgcgcaa gaagtccagg cgggaacgca agcgcagcgg
     1621 cgaggccaag gaggccgcct cgtcctcgtc gggcacccag ccagcgccgc ccgccccggc
     1681 ctcgccctgg gactccaaga agcaccgctc gcgggaccgc aagcccggct cccacgcctc
     1741 gtcgtccgcc cgccgccgct cccgctcccg ctcccgctcc cgctccaccc gccgccgctc
     1801 gcgcagcacc gaccgccgcc gcgggggcag ccgcaggtcg cggtcccggg agaagcggcg
     1861 acggcggcgg cgctccgcct ccccgccccc ggccacttcc tcatcgtcgt cctcgaggcg
     1921 cgagcggcac cgcgggaaac accgggacgg tggcggcagc aagaagaaga agaagcggtc
     1981 gcggtcccgg ggtgagaagc ggtctgggga tggcagcgag aaggccccgg cgcccgcccc
     2041 gccgccctct ggctccacct cgtgtggtga ccgcgacagc cgccgccggg gggccgtgcc
     2101 accctccatc caggacctca cggaccacga cctcttcgcc atcaagcgga ccatcacggt
     2161 gggccggctt gacaagtccg acccccgagg accctctcct gctccggcct cctcacctaa
     2221 gcgggaggtc ctgtacgact ccgagggact gagcggcgag gagcggggcg gcaagagcag
     2281 ccagaaggat cggcgccgct cgggggccgc ctcctcctcc tcctcttccc gggagaaggg
     2341 gtctcgtcgg aaggcgctgg acgggggtga ccgggatcgg gacagggaca gagataggga
     2401 cagggacagg tcatccaaga aggcccggcc ccccaaggag tcggcgcctt cctcagggcc
     2461 cccgccaaag ccaccagtca gcagcggctc aggctcttca tcctcgtcgt cctcctgttc
     2521 ttcccggaag gtgaagctgc agtccaaggt ggcggtgctg atccgcgagg gtgtcagcag
     2581 caccaccccg gccaaggatg ccgcgtcagc cggcctgggc tccattggcg tcaaattcag
     2641 ccgtgaccgc gagagtcgct cccccttcct caaacctgac gagcgggccc ccactgagat
     2701 ggccaaagca gctccgggca gcaccaagcc caaaaagacc aaggtcaagg ccaaggcagg
     2761 ggccaagaaa accaagggga ccaagggaaa gaccaagcca tccaagacca ggaaaaaggt
     2821 ccgcagtgga ggtggcagcg ggggcagtgg tggccaggtg tcgctgaaga agtccaaggc
     2881 ggatagctgc agccaggcgg caggcaccaa gggggcggag gagacttcct ggtccgggga
     2941 ggagcgggca gccaaggttc ctagcacccc gccccccaag gcagccccac caccccctgc
     3001 cctcactccg gactcgcaga ccgtggacag cagctgcaag acacctgagg tctccttcct
     3061 gcccgaggag gccactgagg aggctggggt ccgaggtggg gcggaggagg aggaggagga
     3121 agaagaagag gaggaggaag aggaagagga ggaggagcag cagcctgcta ccaccacggc
     3181 caccagcact gctgcagccg ccccaagcac tgcccccagc gcggggtcca cagccggtga
     3241 ctcgggggcg gaggacgggc cagcttcccg tgtctcccag ctgcccacgt tgcccccgcc
     3301 catgccctgg aatctgccag ctggtgtgga ctgcaccacc agcggcgtcc tggccttgac
     3361 tgcacttctc ttcaagatgg aagaagccaa cctggcgagc cgagcgaagg cccaggagct
     3421 gatccaggcc accaaccaga tcctcagcca cagaaagcca ccctcaagtc tggggatgac
     3481 cccagctcct gtgcccacct ctttgggtct gccccctggc ccctccagct acctgcttcc
     3541 tggcagcctc cctctggggg gctgcggttc gacccccccc acccccaccg ggctggctgc
     3601 cacgtctgac aagagagagg gcagcagcag ctctgagggc cgtggggaca cagataagta
     3661 tctgaagaag ctgcacacgc aggagcgggc ggtggaggag gtgaagctgg ccatcaagcc
     3721 atactatcag aagaaggaca tcaccaagga ggagtacaag gacatcctga ggaaggccgt
     3781 ccacaagatc tgccacagca aaagtgggga aatcaaccca gtgaaggtga gcaacctggt
     3841 gcgggcctac gtccagcgct accgctactt ccgcaagcac ggtcgcaagc caggggaccc
     3901 cccagggccc ccacggccgc ccaaggagcc agggccccca gacaagggtg gcccgggcct
     3961 gcccctgccc cctctctgag agccctggcc agctcttcgc ccctcacctc tttgaaactc
     4021 tggacgtatt tatggctcca cctccccacc tccctccccc gtcagtggga tgactggggg
     4081 agggttgctg cagggaagag gagagccccc tgccctgccc tgccccgtgt ccacctccct
     4141 tgcccccaag cctgtcccca gtgcccctcc cttctgtttg tgcccctctc cccaatttca
     4201 ttaaagattt catgaaacat ta
//
