LOCUS       NM_018250               2549 bp    mRNA    linear   PRI 18-NOV-2024
DEFINITION  Homo sapiens integrator complex subunit 9 (INTS9), transcript
            variant 1, mRNA.
ACCESSION   NM_018250
VERSION     NM_018250.4
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 2549)
  AUTHORS   Lin,M.H., Jensen,M.K., Elrod,N.D., Chu,H.F., Haseley,M., Beam,A.C.,
            Huang,K.L., Chiang,W., Russell,W.K., Williams,K., Proschel,C.,
            Wagner,E.J. and Tong,L.
  TITLE     Cytoplasmic binding partners of the Integrator endonuclease INTS11
            and its paralog CPSF73 are required for their nuclear function
  JOURNAL   Mol Cell 84 (15), 2900-2917 (2024)
   PUBMED   39032490
REFERENCE   2  (bases 1 to 2549)
  AUTHORS   Liu,S., Baeg,G.H., Yang,Y., Goh,F.G., Bao,H., Wagner,E.J., Yang,X.
            and Cai,Y.
  TITLE     The Integrator complex desensitizes cellular response to
            TGF-beta/BMP signaling
  JOURNAL   Cell Rep 42 (1), 112007 (2023)
   PUBMED   36641752
REFERENCE   3  (bases 1 to 2549)
  AUTHORS   Lin,M.H., Jensen,M.K., Elrod,N.D., Huang,K.L., Welle,K.A.,
            Wagner,E.J. and Tong,L.
  TITLE     Inositol hexakisphosphate is required for Integrator function
  JOURNAL   Nat Commun 13 (1), 5742 (2022)
   PUBMED   36180473
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2549)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   5  (bases 1 to 2549)
  AUTHORS   Pfleiderer,M.M. and Galej,W.P.
  TITLE     Structure of the catalytic core of the Integrator complex
  JOURNAL   Mol Cell 81 (6), 1246-1259 (2021)
   PUBMED   33548203
REFERENCE   6  (bases 1 to 2549)
  AUTHORS   Marcon,E., Ni,Z., Pu,S., Turinsky,A.L., Trimble,S.S., Olsen,J.B.,
            Silverman-Gavrila,R., Silverman-Gavrila,L., Phanse,S., Guo,H.,
            Zhong,G., Guo,X., Young,P., Bailey,S., Roudeva,D., Zhao,D.,
            Hewel,J., Li,J., Graslund,S., Paduch,M., Kossiakoff,A.A.,
            Lupien,M., Emili,A., Wodak,S.J. and Greenblatt,J.
  TITLE     Human-chromatin-related protein interactions identify a demethylase
            complex required for chromosome segregation
  JOURNAL   Cell Rep 8 (1), 297-310 (2014)
   PUBMED   24981860
REFERENCE   7  (bases 1 to 2549)
  AUTHORS   Jodoin,J.N., Sitaram,P., Albrecht,T.R., May,S.B., Shboul,M.,
            Lee,E., Reversade,B., Wagner,E.J. and Lee,L.A.
  TITLE     Nuclear-localized Asunder regulates cytoplasmic dynein localization
            via its role in the integrator complex
  JOURNAL   Mol Biol Cell 24 (18), 2954-2965 (2013)
   PUBMED   23904267
REFERENCE   8  (bases 1 to 2549)
  AUTHORS   Albrecht,T.R. and Wagner,E.J.
  TITLE     snRNA 3' end formation requires heterodimeric association of
            integrator subunits
  JOURNAL   Mol Cell Biol 32 (6), 1112-1123 (2012)
   PUBMED   22252320
  REMARK    GeneRIF: The specific heterodimeric interaction between IntS9 and
            IntS11 is mediated by a discrete domain present at the extreme C
            terminus of IntS9 and within the C terminus of IntS11, adjacent to
            the predicted active site of this endonuclease.
REFERENCE   9  (bases 1 to 2549)
  AUTHORS   Baillat,D., Hakimi,M.A., Naar,A.M., Shilatifard,A., Cooch,N. and
            Shiekhattar,R.
  TITLE     Integrator, a multiprotein mediator of small nuclear RNA
            processing, associates with the C-terminal repeat of RNA polymerase
            II
  JOURNAL   Cell 123 (2), 265-276 (2005)
   PUBMED   16239144
REFERENCE   10 (bases 1 to 2549)
  AUTHORS   Dominski,Z., Yang,X.C., Purdy,M., Wagner,E.J. and Marzluff,W.F.
  TITLE     A CPSF-73 homologue is required for cell cycle progression but not
            cell growth and interacts with a protein having features of
            CPSF-100
  JOURNAL   Mol Cell Biol 25 (4), 1489-1500 (2005)
   PUBMED   15684398
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DC339488.1 and BC025267.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 22, 2018 this sequence version replaced NM_018250.3.
            
            Summary: This gene encodes a subunit of the Integrator complex.
            This protein complex binds the C-terminal domain of RNA polymerase
            II and likely plays a role in small nuclear RNA processing. The
            encoded protein has similarities to the subunits of the cleavage
            and polyadenylation specificity factor complex. Alternatively
            spliced transcript variants have been described.[provided by
            RefSeq, Feb 2010].
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest isoform (1).
            
            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 :: AK225530.1, SRR1803611.170659.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000521022.6/ ENSP00000429065.1
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-38                DC339488.1         214-251
            39-2549             BC025267.1         1-2511
FEATURES             Location/Qualifiers
     source          1..2549
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="8"
                     /map="8p21.1"
     gene            1..2549
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /note="integrator complex subunit 9"
                     /db_xref="GeneID:55756"
                     /db_xref="HGNC:HGNC:25592"
                     /db_xref="MIM:611352"
     exon            1..96
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     CDS             88..2064
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /note="isoform 1 is encoded by transcript variant 1;
                     protein related to CPSF subunits of 74 kDa"
                     /codon_start=1
                     /product="integrator complex subunit 9 isoform 1"
                     /protein_id="NP_060720.2"
                     /db_xref="CCDS:CCDS34873.1"
                     /db_xref="GeneID:55756"
                     /db_xref="HGNC:HGNC:25592"
                     /db_xref="MIM:611352"
                     /translation="MKLYCLSGHPTLPCNVLKFKSTTIMLDCGLDMTSTLNFLPLPLV
                     QSPRLSNLPGWSLKDGNAFLDKELKECSGHVFVDSVPEFCLPETELIDLSTVDVILIS
                     NYHCMMALPYITEHTGFTGTVYATEPTVQIGRLLMEELVNFIERVPKAQSASLWKNKD
                     IQRLLPSPLKDAVEVSTWRRCYTMQEVNSALSKIQLVGYSQKIELFGAVQVTPLSSGY
                     ALGSSNWIIQSHYEKVSYVSGSSLLTTHPQPMDQASLKNSDVLVLTGLTQIPTANPDG
                     MVGEFCSNLALTVRNGGNVLVPCYPSGVIYDLLECLYQYIDSAGLSSVPLYFISPVAN
                     SSLEFSQIFAEWLCHNKQSKVYLPEPPFPHAELIQTNKLKHYPSIHGDFSNDFRQPCV
                     VFTGHPSLRFGDVVHFMELWGKSSLNTVIFTEPDFSYLEALAPYQPLAMKCIYCPIDT
                     RLNFIQVSKLLKEVQPLHVVCPEQYTQPPPAQSHRMDLMIDCQPPAMSYRRAEVLALP
                     FKRRYEKIEIMPELADSLVPMEIKPGISLATVSAVLHTKDNKHLLQPPPRPAQPTSGK
                     KRKRVSDDVPDCKVLKPLLSGSIPVEQFVQTLEKHGFSDIKVEDTAKGHIVLLQEAET
                     LIQIEEDSTHIICDNDEMLRVRLRDLVLKFLQKF"
     exon            97..224
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            225..285
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            286..348
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            349..488
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            489..575
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            576..696
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            697..831
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            832..943
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            944..1124
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            1125..1185
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            1186..1357
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            1358..1482
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            1483..1650
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            1651..1749
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            1750..1887
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     exon            1888..2549
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2527..2532
                     /regulatory_class="polyA_signal_sequence"
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /note="hexamer: AATAAA"
     polyA_site      2549
                     /gene="INTS9"
                     /gene_synonym="CPSF2L; INT9; RC74"
                     /note="major polyA site"
ORIGIN      
        1 ggctggcagg tggcggagat tgcaccggaa gacgcttcct gggtttgagg agttcagtga
       61 ctgctattga accaccaaaa gtccattatg aaactgtatt gcctgtcagg gcacccaacc
      121 ttaccatgca atgtgctcaa attcaaatca accaccatta tgttggactg cggactggac
      181 atgacttcta ccctcaattt ccttcctttg ccacttgttc aaagtcccag gctgtccaat
      241 cttcctggct ggtccctgaa ggatggaaat gctttcttgg acaaggagct aaaggagtgc
      301 tcgggtcatg tatttgtgga ttctgtgccg gaattctgtt taccagagac ggagctaata
      361 gatctgtcta cagtagatgt gattctcatc tctaactatc actgtatgat ggcgctgcca
      421 tacatcaccg agcacaccgg cttcacaggc acagtgtatg ccacggaacc caccgtccag
      481 atcggcaggc ttctcatgga agagctggtg aatttcattg aaagagtgcc aaaggctcag
      541 tctgcctcct tgtggaagaa taaggacatt cagaggctgt taccttctcc tctcaaggat
      601 gcagtggaag tctcaacctg gagaagatgc tatacaatgc aagaggtgaa ctctgccctt
      661 agtaaaatcc agctggtggg atattctcag aaaattgagc tttttggtgc ggtccaggtg
      721 actcctctga gctctggcta tgcccttggg agctccaact ggatcatcca gtctcattac
      781 gagaaagtgt cttatgtctc tggatcctcc ttgcttacca cacaccccca gcccatggac
      841 caagcttctc tcaaaaacag cgatgttctt gttctgacag ggcttaccca gatccccact
      901 gcaaacccag atggaatggt gggagagttc tgcagcaacc tagctctgac agtccggaat
      961 ggaggaaacg tgttggttcc ctgctaccct tctggagtga tctatgacct cctggagtgc
     1021 ctatatcagt acatcgactc agccgggctt tccagcgtcc ccctctactt catctcccct
     1081 gtggccaaca gttcactgga gttttcccag atctttgctg agtggctttg tcacaacaaa
     1141 cagagtaagg tgtatcttcc agaaccacct tttcctcatg cagagctcat tcagaccaat
     1201 aagctgaagc actaccccag catccacgga gacttcagca acgactttag acagccctgt
     1261 gtggtgttca ccgggcaccc ttccctccgc ttcggggacg tggtccactt catggagctc
     1321 tggggaaaat ctagtctcaa taccgtcata ttcacggaac cagacttctc ctacctggaa
     1381 gccctggctc cttaccagcc gctggccatg aaatgcatct actgccccat cgacacccgg
     1441 ctgaacttca tccaggtgtc aaagctgctt aaagaagtgc agcccctgca cgtggtgtgt
     1501 cctgagcagt acactcagcc gcccccagcc cagtcccaca ggatggacct catgatcgac
     1561 tgccagcccc ccgccatgtc ctatcggcgg gctgaggttc tcgccctgcc cttcaaacgt
     1621 cggtacgaga agatcgagat catgccagag ctcgcagatt cactggtgcc catggagatc
     1681 aagcctggca tctccttggc aactgtctcg gccgtgctgc acaccaaaga taacaagcac
     1741 ttgcttcagc cccctcctcg gcccgcccag cccacgagcg ggaagaagag aaagcgggtg
     1801 agcgatgacg taccagactg caaagtcctg aagcctttgt tgagcggttc catccctgtg
     1861 gagcagttcg tgcagaccct ggagaagcat ggcttcagtg atattaaggt ggaggacaca
     1921 gccaagggcc atatcgtcct gctccaggag gctgagacgc tcatccagat tgaagaagac
     1981 tcgacccata tcatctgcga caatgacgag atgctcagag tgcgactgcg ggaccttgtc
     2041 ctcaaattct tacagaagtt ctgagtgggc catctgagct acttccctga aatcctgcag
     2101 tccctcactg gctgccctca caagccacct gaggagtggc atgagaggcc attaactgtg
     2161 tctttgtggt gtcctctggc ttaaggagtg aagaggtggc tcttgaggga aatggtctgg
     2221 acttattccc agcactgttt caggcaagaa ctttcccttt caacttcagg ctcattttct
     2281 tctcaactct ggctctctca aggagctgga gggtggcaga agtgggacag gagaagtttt
     2341 ccaagaggtt catgggaggc ggaggtgact ggctggctgt cttgcatcag tcccaggcct
     2401 cggccagggg agccagcctt tggtttcgtt tacttgccta cagtgctgta cgcaataaga
     2461 tgatgatccc aaaatatggt aaagtgaacc catctgtctg cattttctac tctgagccca
     2521 tttgttaata aacacttatt tttatataa
//
