LOCUS       NM_016047                651 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens splicing factor 3b subunit 6 (SF3B6), mRNA.
ACCESSION   NM_016047
VERSION     NM_016047.4
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 651)
  AUTHORS   Cho,N.H., Cheveralls,K.C., Brunner,A.D., Kim,K., Michaelis,A.C.,
            Raghavan,P., Kobayashi,H., Savy,L., Li,J.Y., Canaj,H., Kim,J.Y.S.,
            Stewart,E.M., Gnann,C., McCarthy,F., Cabrera,J.P., Brunetti,R.M.,
            Chhun,B.B., Dingle,G., Hein,M.Y., Huang,B., Mehta,S.B.,
            Weissman,J.S., Gomez-Sjoberg,R., Itzhak,D.N., Royer,L.A., Mann,M.
            and Leonetti,M.D.
  TITLE     OpenCell: Endogenous tagging for the cartography of human cellular
            organization
  JOURNAL   Science 375 (6585), eabi6983 (2022)
   PUBMED   35271311
REFERENCE   2  (bases 1 to 651)
  AUTHORS   Kato,K., Udagawa,R., Hayashi,Y., Maki,M., Yanagida,M.,
            Higashiura,S., Yagishita,R., Shimamoto,H. and Kimura,K.
  TITLE     SF3B14 is involved in the centrosome regulation through splicing of
            TUBGCP6 pre-mRNA
  JOURNAL   Biochem Biophys Res Commun 588, 133-139 (2022)
   PUBMED   34954520
  REMARK    GeneRIF: SF3B14 is involved in the centrosome regulation through
            splicing of TUBGCP6 pre-mRNA.
REFERENCE   3  (bases 1 to 651)
  AUTHORS   Tholen,J., Razew,M., Weis,F. and Galej,W.P.
  TITLE     Structural basis of branch site recognition by the human
            spliceosome
  JOURNAL   Science 375 (6576), 50-57 (2022)
   PUBMED   34822310
REFERENCE   4  (bases 1 to 651)
  AUTHORS   Li,J., Tong,H., Li,D., Jiang,Q., Zhang,Y., Tang,W., Jin,D.,
            Chen,S., Qin,X., Zhang,S. and Xue,R.
  TITLE     The long non-coding RNA DKFZp434J0226 regulates the alternative
            splicing process through phosphorylation of SF3B6 in PDAC
  JOURNAL   Mol Med 27 (1), 95 (2021)
   PUBMED   34470609
  REMARK    GeneRIF: The long non-coding RNA DKFZp434J0226 regulates the
            alternative splicing process through phosphorylation of SF3B6 in
            PDAC.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 651)
  AUTHORS   Zhang,Z., Will,C.L., Bertram,K., Dybkov,O., Hartmuth,K.,
            Agafonov,D.E., Hofele,R., Urlaub,H., Kastner,B., Luhrmann,R. and
            Stark,H.
  TITLE     Molecular architecture of the human 17S U2 snRNP
  JOURNAL   Nature 583 (7815), 310-313 (2020)
   PUBMED   32494006
REFERENCE   6  (bases 1 to 651)
  AUTHORS   Will,C.L., Urlaub,H., Achsel,T., Gentzel,M., Wilm,M. and
            Luhrmann,R.
  TITLE     Characterization of novel SF3b and 17S U2 snRNP proteins, including
            a human Prp5p homologue and an SF3b DEAD-box protein
  JOURNAL   EMBO J 21 (18), 4978-4988 (2002)
   PUBMED   12234937
REFERENCE   7  (bases 1 to 651)
  AUTHORS   Zhou,Z., Licklider,L.J., Gygi,S.P. and Reed,R.
  TITLE     Comprehensive proteomic analysis of the human spliceosome
  JOURNAL   Nature 419 (6903), 182-185 (2002)
   PUBMED   12226669
REFERENCE   8  (bases 1 to 651)
  AUTHORS   Will,C.L., Schneider,C., MacMillan,A.M., Katopodis,N.F.,
            Neubauer,G., Wilm,M., Luhrmann,R. and Query,C.C.
  TITLE     A novel U2 and U11/U12 snRNP protein that associates with the
            pre-mRNA branch site
  JOURNAL   EMBO J 20 (16), 4536-4546 (2001)
   PUBMED   11500380
REFERENCE   9  (bases 1 to 651)
  AUTHORS   Harrington,J.J., Sherf,B., Rundlett,S., Jackson,P.D., Perry,R.,
            Cain,S., Leventhal,C., Thornton,M., Ramachandran,R.,
            Whittington,J., Lerner,L., Costanzo,D., McElligott,K., Boozer,S.,
            Mays,R., Smith,E., Veloso,N., Klika,A., Hess,J., Cothren,K., Lo,K.,
            Offenbacher,J., Danzig,J. and Ducar,M.
  TITLE     Creation of genome-wide protein expression libraries using random
            activation of gene expression
  JOURNAL   Nat Biotechnol 19 (5), 440-445 (2001)
   PUBMED   11329013
REFERENCE   10 (bases 1 to 651)
  AUTHORS   Hu,R.M., Han,Z.G., Song,H.D., Peng,Y.D., Huang,Q.H., Ren,S.X.,
            Gu,Y.J., Huang,C.H., Li,Y.B., Jiang,C.L., Fu,G., Zhang,Q.H.,
            Gu,B.W., Dai,M., Mao,Y.F., Gao,G.F., Rong,R., Ye,M., Zhou,J.,
            Xu,S.H., Gu,J., Shi,J.X., Jin,W.R., Zhang,C.K., Wu,T.M.,
            Huang,G.Y., Chen,Z., Chen,M.D. and Chen,J.L.
  TITLE     Gene expression profiling in the human
            hypothalamus-pituitary-adrenal axis and full-length cDNA cloning
  JOURNAL   Proc Natl Acad Sci U S A 97 (17), 9543-9548 (2000)
   PUBMED   10931946
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BC015463.1 and BG200650.1.
            
            On Nov 22, 2018 this sequence version replaced NM_016047.3.
            
            Summary: This gene encodes a 14 kDa protein subunit of the splicing
            factor 3b complex. Splicing factor 3b associates with both the U2
            and U11/U12 small nuclear ribonucleoprotein complexes (U2 snRNP) of
            spliceosomes. This 14 kDa protein interacts directly with subunit 1
            of the splicing factor 3b complex. This 14 kDa protein also
            interacts directly with the adenosine that carries out the first
            transesterification step of splicing at the pre-mRNA branch site.
            [provided by RefSeq, Jul 2008].
            
            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 :: SRR1163655.172119.1,
                                           SRR1163657.34312.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968189, SAMEA2148093
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000233468.5/ ENSP00000233468.4
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-636               BC015463.1         119-754
            637-651             BG200650.1         516-530
FEATURES             Location/Qualifiers
     source          1..651
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="2"
                     /map="2p23.3"
     gene            1..651
                     /gene="SF3B6"
                     /gene_synonym="CGI-110; HSPC175; Ht006; P14; SAP14;
                     SAP14a; SF3B14; SF3B14a"
                     /note="splicing factor 3b subunit 6"
                     /db_xref="GeneID:51639"
                     /db_xref="HGNC:HGNC:30096"
                     /db_xref="MIM:607835"
     exon            1..127
                     /gene="SF3B6"
                     /gene_synonym="CGI-110; HSPC175; Ht006; P14; SAP14;
                     SAP14a; SF3B14; SF3B14a"
                     /inference="alignment:Splign:2.1.0"
     CDS             98..475
                     /gene="SF3B6"
                     /gene_synonym="CGI-110; HSPC175; Ht006; P14; SAP14;
                     SAP14a; SF3B14; SF3B14a"
                     /note="spliceosome-associated protein, 14 kDa subunit;
                     pre-mRNA branch site protein p14; SF3b 14 kDa subunit;
                     splicing factor 3B, 14 kDa subunit; spliceosome-associated
                     protein, 14-kDa; splicing factor 3b, subunit 6, 14kDa"
                     /codon_start=1
                     /product="splicing factor 3B subunit 6"
                     /protein_id="NP_057131.1"
                     /db_xref="CCDS:CCDS1707.1"
                     /db_xref="GeneID:51639"
                     /db_xref="HGNC:HGNC:30096"
                     /db_xref="MIM:607835"
                     /translation="MAMQAAKRANIRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGP
                     IRQIRVGNTPETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNANRAFQKMD
                     TKKKEEQLKLLKEKYGINTDPPK"
     exon            128..246
                     /gene="SF3B6"
                     /gene_synonym="CGI-110; HSPC175; Ht006; P14; SAP14;
                     SAP14a; SF3B14; SF3B14a"
                     /inference="alignment:Splign:2.1.0"
     exon            247..385
                     /gene="SF3B6"
                     /gene_synonym="CGI-110; HSPC175; Ht006; P14; SAP14;
                     SAP14a; SF3B14; SF3B14a"
                     /inference="alignment:Splign:2.1.0"
     exon            386..651
                     /gene="SF3B6"
                     /gene_synonym="CGI-110; HSPC175; Ht006; P14; SAP14;
                     SAP14a; SF3B14; SF3B14a"
                     /inference="alignment:Splign:2.1.0"
     regulatory      627..632
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SF3B6"
                     /gene_synonym="CGI-110; HSPC175; Ht006; P14; SAP14;
                     SAP14a; SF3B14; SF3B14a"
                     /note="hexamer: AATAAA"
     polyA_site      651
                     /gene="SF3B6"
                     /gene_synonym="CGI-110; HSPC175; Ht006; P14; SAP14;
                     SAP14a; SF3B14; SF3B14a"
                     /note="major polyA site"
ORIGIN      
        1 gttgatgtcc tgcatctaac gcggtgtaac ccccgaagcc gagcgagctc cggaggaatt
       61 tcagtatctg ctacggtaac ttcatcagcc cgccaagatg gcgatgcaag cggccaagag
      121 ggcgaacatt cgacttccac ctgaagtaaa tcggatattg tatataagaa atttgccata
      181 caaaatcaca gctgaagaaa tgtatgatat atttgggaaa tatggaccta ttcgtcaaat
      241 cagagtgggg aacacacctg aaactagagg aacagcttat gtggtctatg aggacatctt
      301 tgatgccaag aatgcatgtg atcacctatc gggattcaat gtttgtaaca gataccttgt
      361 ggttttgtac tataatgcca acagggcatt tcagaagatg gacacaaaga agaaggagga
      421 acagttgaag cttctcaagg agaaatatgg catcaacaca gatccaccaa aataaatgtt
      481 ttctacattt tcatttggac taaatcccac gaatgacaac taccaccttt ttttcctttt
      541 taattaatac taaatattgt gatttcttat ttgaggttca aaatgacctg cttgaaactt
      601 tgatacatat tggaatacat tatgttaata aacttgtagc tttttgtgaa a
//
