LOCUS       NM_005850               1544 bp    mRNA    linear   PRI 20-FEB-2025
DEFINITION  Homo sapiens splicing factor 3b subunit 4 (SF3B4), mRNA.
ACCESSION   NM_005850
VERSION     NM_005850.5
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 1544)
  AUTHORS   Yang,S., Ko,M., Hur,S.C., Lee,E.K. and Jeong,S.M.
  TITLE     SF3B4 Regulates Cellular Senescence and Suppresses Therapy-induced
            Senescence of Cancer Cells
  JOURNAL   Cancer Genomics Proteomics 21 (6), 622-629 (2024)
   PUBMED   39467623
  REMARK    GeneRIF: SF3B4 Regulates Cellular Senescence and Suppresses
            Therapy-induced Senescence of Cancer Cells.
REFERENCE   2  (bases 1 to 1544)
  AUTHORS   Khoroshkin,M., Buyan,A., Dodel,M., Navickas,A., Yu,J., Trejo,F.,
            Doty,A., Baratam,R., Zhou,S., Lee,S.B., Joshi,T., Garcia,K.,
            Choi,B., Miglani,S., Subramanyam,V., Modi,H., Carpenter,C.,
            Markett,D., Corces,M.R., Mardakheh,F.K., Kulakovskiy,I.V. and
            Goodarzi,H.
  TITLE     Systematic identification of post-transcriptional regulatory
            modules
  JOURNAL   Nat Commun 15 (1), 7872 (2024)
   PUBMED   39251607
  REMARK    Erratum:[Nat Commun. 2024 Oct 28;15(1):9277. doi:
            10.1038/s41467-024-52903-4.. PMID: 39468017]
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1544)
  AUTHORS   He,G., Gu,K., Wei,J. and Zhang,J.
  TITLE     METTL3-mediated the m6A modification of SF3B4 facilitates the
            development of non-small cell lung cancer by enhancing LSM4
            expression
  JOURNAL   Thorac Cancer 15 (11), 919-928 (2024)
   PUBMED   38462740
  REMARK    GeneRIF: METTL3-mediated the m6A modification of SF3B4 facilitates
            the development of non-small cell lung cancer by enhancing LSM4
            expression.
REFERENCE   4  (bases 1 to 1544)
  AUTHORS   Yang,H., Sui,L., Cai,C., Chu,H. and Diao,Y.
  TITLE     SETDB1 promotes progression through upregulation of SF3B4
            expression and regulates the immunity in ovarian cancer
  JOURNAL   J Ovarian Res 17 (1), 34 (2024)
   PUBMED   38317200
  REMARK    GeneRIF: SETDB1 promotes progression through upregulation of SF3B4
            expression and regulates the immunity in ovarian cancer.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1544)
  AUTHORS   Yang,F., Bian,T., Zhan,X., Chen,Z., Xing,Z., Larsen,N.A., Zhang,X.
            and Shi,Y.
  TITLE     Mechanisms of the RNA helicases DDX42 and DDX46 in human U2 snRNP
            assembly
  JOURNAL   Nat Commun 14 (1), 897 (2023)
   PUBMED   36797247
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1544)
  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   7  (bases 1 to 1544)
  AUTHORS   Das,R., Zhou,Z. and Reed,R.
  TITLE     Functional association of U2 snRNP with the ATP-independent
            spliceosomal complex E
  JOURNAL   Mol Cell 5 (5), 779-787 (2000)
   PUBMED   10882114
REFERENCE   8  (bases 1 to 1544)
  AUTHORS   Das,B.K., Xia,L., Palandjian,L., Gozani,O., Chyung,Y. and Reed,R.
  TITLE     Characterization of a protein complex containing spliceosomal
            proteins SAPs 49, 130, 145, and 155
  JOURNAL   Mol Cell Biol 19 (10), 6796-6802 (1999)
   PUBMED   10490618
REFERENCE   9  (bases 1 to 1544)
  AUTHORS   Neubauer,G., King,A., Rappsilber,J., Calvio,C., Watson,M., Ajuh,P.,
            Sleeman,J., Lamond,A. and Mann,M.
  TITLE     Mass spectrometry and EST-database searching allows
            characterization of the multi-protein spliceosome complex
  JOURNAL   Nat Genet 20 (1), 46-50 (1998)
   PUBMED   9731529
REFERENCE   10 (bases 1 to 1544)
  AUTHORS   Champion-Arnaud,P. and Reed,R.
  TITLE     The prespliceosome components SAP 49 and SAP 145 interact in a
            complex implicated in tethering U2 snRNP to the branch site
  JOURNAL   Genes Dev 8 (16), 1974-1983 (1994)
   PUBMED   7958871
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA535996.1, BC004273.1 and
            AI925089.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 23, 2018 this sequence version replaced NM_005850.4.
            
            Summary: This gene encodes one of four subunits of the splicing
            factor 3B. The protein encoded by this gene cross-links to a region
            in the pre-mRNA immediately upstream of the branchpoint sequence in
            pre-mRNA in the prespliceosomal complex A. It also may be involved
            in the assembly of the B, C and E spliceosomal complexes. In
            addition to RNA-binding activity, this protein interacts directly
            and highly specifically with subunit 2 of the splicing factor 3B.
            This protein contains two N-terminal RNA-recognition motifs (RRMs),
            consistent with the observation that it binds directly to pre-mRNA.
            [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 :: AK223322.1, AK097315.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2142680, SAMEA2148093
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000271628.9/ ENSP00000271628.8
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-36                DA535996.1         445-480
            37-1542             BC004273.1         1-1506
            1543-1544           AI925089.1         9-10                c
FEATURES             Location/Qualifiers
     source          1..1544
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1q21.2"
     gene            1..1544
                     /gene="SF3B4"
                     /gene_synonym="AFD1; Hsh49; SAP49; SF3b49"
                     /note="splicing factor 3b subunit 4"
                     /db_xref="GeneID:10262"
                     /db_xref="HGNC:HGNC:10771"
                     /db_xref="MIM:605593"
     exon            1..78
                     /gene="SF3B4"
                     /gene_synonym="AFD1; Hsh49; SAP49; SF3b49"
                     /inference="alignment:Splign:2.1.0"
     CDS             45..1319
                     /gene="SF3B4"
                     /gene_synonym="AFD1; Hsh49; SAP49; SF3b49"
                     /note="spliceosome-associated protein (U2 snRNP);
                     spliceosomal protein; SAP 49; SF3b50;
                     spliceosome-associated protein 49; splicing factor 3b,
                     subunit 4, 49kD; splicing factor 3b, subunit 4, 49kDa;
                     pre-mRNA-splicing factor SF3b 49 kDa subunit"
                     /codon_start=1
                     /product="splicing factor 3B subunit 4"
                     /protein_id="NP_005841.1"
                     /db_xref="CCDS:CCDS72900.1"
                     /db_xref="GeneID:10262"
                     /db_xref="HGNC:HGNC:10771"
                     /db_xref="MIM:605593"
                     /translation="MAAGPISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHM
                     PKDRVTGQHQGYGFVEFLSEEDADYAIKIMNMIKLYGKPIRVNKASAHNKNLDVGANI
                     FIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIE
                     AMNGQYLCNRPITVSYAFKKDSKGERHGSAAERLLAAQNPLSQADRPHQLFADAPPPP
                     SAPNPVVSSLGSGLPPPGMPPPGSFPPPVPPPGALPPGIPPAMPPPPMPPGAAGHGPP
                     SAGTPGAGHPGHGHSHPHPFPPGGMPHPGMSQMQLAHHGPHGLGHPHAGPPGSGGQPP
                     PRPPPGMPHPGPPPMGMPPRGPPFGSPMGHPGPMPPHGMRGPPPLMPPHGYTGPPRPP
                     PYGYQRGPLPPPRPTPRPPVPPRGPLRGPLPQ"
     exon            79..207
                     /gene="SF3B4"
                     /gene_synonym="AFD1; Hsh49; SAP49; SF3b49"
                     /inference="alignment:Splign:2.1.0"
     exon            208..750
                     /gene="SF3B4"
                     /gene_synonym="AFD1; Hsh49; SAP49; SF3b49"
                     /inference="alignment:Splign:2.1.0"
     exon            751..957
                     /gene="SF3B4"
                     /gene_synonym="AFD1; Hsh49; SAP49; SF3b49"
                     /inference="alignment:Splign:2.1.0"
     exon            958..1131
                     /gene="SF3B4"
                     /gene_synonym="AFD1; Hsh49; SAP49; SF3b49"
                     /inference="alignment:Splign:2.1.0"
     exon            1132..1544
                     /gene="SF3B4"
                     /gene_synonym="AFD1; Hsh49; SAP49; SF3b49"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1522..1527
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SF3B4"
                     /gene_synonym="AFD1; Hsh49; SAP49; SF3b49"
                     /note="hexamer: AATAAA"
     polyA_site      1544
                     /gene="SF3B4"
                     /gene_synonym="AFD1; Hsh49; SAP49; SF3b49"
                     /note="major polyA site"
ORIGIN      
        1 agaaggcgga accgctgctg ggagacggcg ggatctcttt cgccatggct gccgggccga
       61 tctccgagcg gaatcaggat gccactgtgt acgtgggggg cctggatgag aaggttagtg
      121 aaccgctgct gtgggaactg tttctccagg ctggaccagt agtcaacacc cacatgccaa
      181 aggatagagt cactggccag caccaaggct atggctttgt ggaattcttg agtgaggaag
      241 atgctgacta tgccattaag atcatgaaca tgatcaaact ctatgggaag ccaatacggg
      301 tgaacaaagc atcagctcac aacaaaaacc tggatgtagg ggccaacatt ttcattggga
      361 acctggaccc tgagattgat gagaagttgc tttatgatac tttcagcgcc tttggggtca
      421 tcttacaaac ccccaaaatt atgcgggacc ctgacacagg caactccaaa ggttatgcct
      481 ttattaattt tgcttcattt gatgcttcgg atgcagcaat tgaagccatg aatgggcagt
      541 acctctgtaa ccgtcctatc accgtatctt atgccttcaa gaaggactcc aagggtgagc
      601 gccatggctc agcagccgaa cgacttctgg cagctcagaa cccgctctcc caggctgatc
      661 gccctcatca gctgtttgca gatgcacctc ctccaccctc tgctcccaat cctgtggtat
      721 catcattggg gtctgggctt cctccaccag gcatgcctcc tcctggctcc ttcccacccc
      781 cagtgccacc tcctggagcc ctcccacctg ggataccccc agccatgccc ccaccaccta
      841 tgcctcctgg ggctgcagga catggccccc catcggcagg aaccccaggg gcaggacatc
      901 ctggtcatgg acactcacat cctcacccat tcccaccggg tgggatgccc catccaggga
      961 tgtctcagat gcagcttgca caccatggcc ctcatggctt aggacatccc cacgctggac
     1021 ccccaggctc tgggggccag ccaccgcccc gaccaccacc tggaatgcct catcctggac
     1081 ctcctccaat gggcatgccc ccccgagggc ctccattcgg atctcccatg ggtcacccag
     1141 gtcctatgcc tccgcatggt atgcgtggac ctcctccact gatgcccccc catggataca
     1201 ctggccctcc acgaccccca ccctatggct accagcgggg gcctctccct ccacccagac
     1261 ccactccccg gccaccagtt ccccctcgag gcccacttcg aggccctctc cctcagtaaa
     1321 ttcacatttt ccttcctcct gttacatttt cccaatatct tttctattcc ttggaccaat
     1381 cagagatgct gtagctcctt ggggcaaagg tactaatccc tttcagcacc cccactccat
     1441 tccccttttt aatgtaactt tttccacagg aggtatttct tttttatgtt ggtcctgagt
     1501 attttgcaaa tgcacagaga aaataaaact aaactccttg ttta
//
