LOCUS       NM_007279               2146 bp    mRNA    linear   PRI 20-FEB-2025
DEFINITION  Homo sapiens U2 small nuclear RNA auxiliary factor 2 (U2AF2),
            transcript variant 1, mRNA.
ACCESSION   NM_007279
VERSION     NM_007279.3
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 2146)
  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   2  (bases 1 to 2146)
  AUTHORS   Li,H., Jiang,Y., Hu,J., Xu,J., Chen,L., Zhang,G., Zhao,J., Zong,S.,
            Guo,Z., Li,X., Zhao,X. and Jing,Z.
  TITLE     The U2AF65/circNCAPG/RREB1 feedback loop promotes malignant
            phenotypes of glioma stem cells through activating the TGF-beta
            pathway
  JOURNAL   Cell Death Dis 14 (1), 23 (2023)
   PUBMED   36635261
  REMARK    GeneRIF: The U2AF65/circNCAPG/RREB1 feedback loop promotes
            malignant phenotypes of glioma stem cells through activating the
            TGF-beta pathway.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2146)
  AUTHORS   Rozza,R., Saltalamacchia,A., Orrico,C., Janos,P. and Magistrato,A.
  TITLE     All-Atom Simulations Elucidate the Impact of U2AF2
            Cancer-Associated Mutations on Pre-mRNA Recognition
  JOURNAL   J Chem Inf Model 62 (24), 6691-6703 (2022)
   PUBMED   36040856
  REMARK    GeneRIF: All-Atom Simulations Elucidate the Impact of U2AF2
            Cancer-Associated Mutations on Pre-mRNA Recognition.
REFERENCE   4  (bases 1 to 2146)
  AUTHORS   Galardi,J.W., Bela,V.N., Jeffery,N., He,X., Glasser,E., Loerch,S.,
            Jenkins,J.L., Pulvino,M.J., Boutz,P.L. and Kielkopf,C.L.
  TITLE     A UHM-ULM interface with unusual structural features contributes to
            U2AF2 and SF3B1 association for pre-mRNA splicing
  JOURNAL   J Biol Chem 298 (8), 102224 (2022)
   PUBMED   35780835
  REMARK    GeneRIF: A UHM-ULM interface with unusual structural features
            contributes to U2AF2 and SF3B1 association for pre-mRNA splicing.
REFERENCE   5  (bases 1 to 2146)
  AUTHORS   Glasser,E., Maji,D., Biancon,G., Puthenpeedikakkal,A.M.K.,
            Cavender,C.E., Tebaldi,T., Jenkins,J.L., Mathews,D.H., Halene,S.
            and Kielkopf,C.L.
  TITLE     Pre-mRNA splicing factor U2AF2 recognizes distinct conformations of
            nucleotide variants at the center of the pre-mRNA splice site
            signal
  JOURNAL   Nucleic Acids Res 50 (9), 5299-5312 (2022)
   PUBMED   35524551
  REMARK    GeneRIF: Pre-mRNA splicing factor U2AF2 recognizes distinct
            conformations of nucleotide variants at the center of the pre-mRNA
            splice site signal.
REFERENCE   6  (bases 1 to 2146)
  AUTHORS   Zuo,P. and Maniatis,T.
  TITLE     The splicing factor U2AF35 mediates critical protein-protein
            interactions in constitutive and enhancer-dependent splicing
  JOURNAL   Genes Dev 10 (11), 1356-1368 (1996)
   PUBMED   8647433
REFERENCE   7  (bases 1 to 2146)
  AUTHORS   Zhang,M., Zamore,P.D., Carmo-Fonseca,M., Lamond,A.I. and Green,M.R.
  TITLE     Cloning and intracellular localization of the U2 small nuclear
            ribonucleoprotein auxiliary factor small subunit
  JOURNAL   Proc Natl Acad Sci U S A 89 (18), 8769-8773 (1992)
   PUBMED   1388271
REFERENCE   8  (bases 1 to 2146)
  AUTHORS   Zamore,P.D., Patton,J.G. and Green,M.R.
  TITLE     Cloning and domain structure of the mammalian splicing factor U2AF
  JOURNAL   Nature 355 (6361), 609-614 (1992)
   PUBMED   1538748
REFERENCE   9  (bases 1 to 2146)
  AUTHORS   Zamore,P.D. and Green,M.R.
  TITLE     Biochemical characterization of U2 snRNP auxiliary factor: an
            essential pre-mRNA splicing factor with a novel intranuclear
            distribution
  JOURNAL   EMBO J 10 (1), 207-214 (1991)
   PUBMED   1824937
REFERENCE   10 (bases 1 to 2146)
  AUTHORS   Zamore,P.D. and Green,M.R.
  TITLE     Identification, purification, and biochemical characterization of
            U2 small nuclear ribonucleoprotein auxiliary factor
  JOURNAL   Proc Natl Acad Sci U S A 86 (23), 9243-9247 (1989)
   PUBMED   2531895
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BC030574.2, X64044.1,
            AC008735.9 and BC008740.2.
            
            On Feb 12, 2020 this sequence version replaced NM_007279.2.
            
            Summary: U2 auxiliary factor (U2AF), comprised of a large and a
            small subunit, is a non-snRNP protein required for the binding of
            U2 snRNP to the pre-mRNA branch site. This gene encodes the U2AF
            large subunit which contains a sequence-specific RNA-binding region
            with 3 RNA recognition motifs and an Arg/Ser-rich domain necessary
            for splicing. The large subunit binds to the polypyrimidine tract
            of introns early during spliceosome assembly. Multiple transcript
            variants have been detected for this gene, but the full-length
            natures of only two have been determined to date. [provided by
            RefSeq, Jul 2008].
            
            Transcript Variant: This variant (1) represents the longer
            transcript and 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 :: X64044.1, SRR14038191.2900749.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000308924.9/ ENSP00000307863.3
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-30                BC030574.2         890-919
            31-1272             X64044.1           1-1242
            1273-1273           AC008735.9         6745-6745           c
            1274-1560           X64044.1           1244-1530
            1561-2146           BC008740.2         1538-2123
FEATURES             Location/Qualifiers
     source          1..2146
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="19"
                     /map="19q13.42"
     gene            1..2146
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /note="U2 small nuclear RNA auxiliary factor 2"
                     /db_xref="GeneID:11338"
                     /db_xref="HGNC:HGNC:23156"
                     /db_xref="MIM:191318"
     exon            1..119
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /inference="alignment:Splign:2.1.0"
     CDS             71..1498
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /note="isoform a is encoded by transcript variant 1; U2
                     small nuclear ribonucleoprotein auxiliary factor (65kD);
                     U2 snRNP auxiliary factor large subunit; U2 (RNU2) small
                     nuclear RNA auxiliary factor 2; splicing factor U2AF 65
                     kDa subunit; hU2AF65; U2 auxiliary factor 65 kDa subunit"
                     /codon_start=1
                     /product="splicing factor U2AF 65 kDa subunit isoform a"
                     /protein_id="NP_009210.1"
                     /db_xref="CCDS:CCDS12933.1"
                     /db_xref="GeneID:11338"
                     /db_xref="HGNC:HGNC:23156"
                     /db_xref="MIM:191318"
                     /translation="MSDFDEFERQLNENKQERDKENRHRKRSHSRSRSRDRKRRSRSR
                     DRRNRDQRSASRDRRRRSKPLTRGAKEEHGGLIRSPRHEKKKKVRKYWDVPPPGFEHI
                     TPMQYKAMQAAGQIPATALLPTMTPDGLAVTPTPVPVVGSQMTRQARRLYVGNIPFGI
                     TEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGII
                     FQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVK
                     ELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQR
                     ASVGAKNATLVSPPSTINQTPVTLQVPGLMSSQVQMGGHPTEVLCLMNMVLPEELLDD
                     EEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLT
                     GRKFANRVVVTKYCDPDSYHRRDFW"
     exon            120..255
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /inference="alignment:Splign:2.1.0"
     exon            256..300
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /inference="alignment:Splign:2.1.0"
     exon            301..404
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /inference="alignment:Splign:2.1.0"
     exon            405..556
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /inference="alignment:Splign:2.1.0"
     exon            557..673
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /inference="alignment:Splign:2.1.0"
     exon            674..812
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /inference="alignment:Splign:2.1.0"
     exon            813..892
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /inference="alignment:Splign:2.1.0"
     exon            893..1015
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /inference="alignment:Splign:2.1.0"
     exon            1016..1114
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /inference="alignment:Splign:2.1.0"
     exon            1115..1363
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /inference="alignment:Splign:2.1.0"
     exon            1364..2146
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2119..2124
                     /regulatory_class="polyA_signal_sequence"
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /note="hexamer: ATTAAA"
     polyA_site      2146
                     /gene="U2AF2"
                     /gene_synonym="DEVDFB; U2AF65"
                     /note="major polyA site"
ORIGIN      
        1 agccgaagcg gctggagcgg gcggcaaggc gaggcgaaag ctgcacaggg ccctacgcgg
       61 ccgcctcagc atgtcggact tcgacgagtt cgagcggcag ctcaacgaga ataaacaaga
      121 gcgggacaag gagaaccggc atcggaagcg cagccacagc cgctctcgga gccgggaccg
      181 caaacgccgg agccggagcc gcgaccggcg caaccgggac cagcggagcg cctcccggga
      241 caggcgacga cgcagcaaac ctttgaccag aggcgctaaa gaggagcacg gtggactgat
      301 tcgttccccc cgccacgaga agaagaagaa ggtccgtaaa tactgggacg tgccaccccc
      361 aggctttgag cacatcaccc caatgcagta caaggccatg caagctgcgg gtcagattcc
      421 agccactgct cttctcccca ccatgacccc tgacggtctg gctgtgaccc caacgccggt
      481 gcccgtggtc gggagccaga tgaccagaca agcccggcgc ctctacgtgg gcaacatccc
      541 ctttggcatc actgaggagg ccatgatgga tttcttcaac gcccagatgc gcctgggggg
      601 gctgacccag gcccctggca acccagtgtt ggctgtgcag attaaccagg acaagaattt
      661 tgcctttttg gagttccgct cagtggacga gactacccag gctatggcct ttgatggcat
      721 catcttccag ggccagtcac taaagatccg caggcctcac gactaccagc cgcttcctgg
      781 catgtcagag aacccctccg tctatgtgcc tggggttgtg tccactgtgg tccccgactc
      841 tgcccacaag ctgttcatcg ggggcttacc caactacctg aacgatgacc aggtcaaaga
      901 gctgctgaca tcctttgggc ccctcaaggc cttcaacctg gtcaaggaca gtgccacggg
      961 gctctccaag ggctacgcct tctgtgagta cgtggacatc aacgtcacgg atcaggccat
     1021 tgcggggctg aacggcatgc agctggggga taagaagctg ctggtccaga gggcgagtgt
     1081 gggagccaag aatgccacgc tggtgagccc cccgagcacc atcaatcaga cgcctgtgac
     1141 cctgcaagtg ccgggcttga tgagctccca ggtgcagatg ggcggccacc cgactgaggt
     1201 cctgtgcctc atgaacatgg tgctgcctga ggagctgctg gacgacgagg agtatgagga
     1261 gatcgtggag gacgtgcggg acgagtgcag caagtacggg cttgtcaagt ccatcgagat
     1321 cccccggcct gtggacggcg tcgaggtgcc cggctgcgga aagatctttg tggagttcac
     1381 ctctgtgttt gactgccaga aagccatgca gggcctgacg ggccgcaagt tcgccaacag
     1441 agtggttgtc acaaaatact gtgaccccga ctcttatcac cgccgggact tctggtagag
     1501 gcggctgggg gagggtgggg gcagggctgg ctgggggctt ctccccactc ccgccccccc
     1561 cttatccccc tctgaagacg atgggcagag gagtgacagc cgcagacaca cgacagccgg
     1621 cagcaactgg aatggcagca attaagggtg gggggcgggg gttggggggt tggggggtta
     1681 gggcagggag gggactgggg aagtgcgcac acagcccaca cagacaacac gcacccacac
     1741 agacacagag ggaaggggtt gggatgggga cagggtgcac agcagggcgg ggtaggaccc
     1801 cagcccctcc caaaacagcc tctccttctc ccatagaccc ctttcttctc cccttcccca
     1861 cggtaggaac atagcgtgtt tatattttat ggccaaacta ttttgaattt tgttgtccgg
     1921 ccctcagtgc cctgccctct cccttaccag gaccacagct ctgttccttc ggcctctggt
     1981 cctctctggt cccctcctgg gtttcttacg tagttgattt ttcctcttta gtctcccccg
     2041 acctgcgccc agccccgtgg cccctgcccc tctcctactc tctgtggcag tttcatattt
     2101 gctaagacga atttgctcat taaacatttt gttgtatttt acttta
//
