LOCUS       NM_024811               3671 bp    mRNA    linear   PRI 20-FEB-2025
DEFINITION  Homo sapiens cleavage and polyadenylation specific factor 7
            (CPSF7), transcript variant 1, mRNA.
ACCESSION   NM_024811
VERSION     NM_024811.4
KEYWORDS    RefSeq.
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 3671)
  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 3671)
  AUTHORS   Tseng,H.W., Mota-Sydor,A., Leventis,R., Jovanovic,P.,
            Topisirovic,I. and Duchaine,T.F.
  TITLE     Distinct, opposing functions for CFIm59 and CFIm68 in mRNA
            alternative polyadenylation of Pten and in the PI3K/Akt signalling
            cascade
  JOURNAL   Nucleic Acids Res 50 (16), 9397-9412 (2022)
   PUBMED   35993810
REFERENCE   3  (bases 1 to 3671)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   4  (bases 1 to 3671)
  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 3671)
  AUTHORS   Fang,S., Zhang,D., Weng,W., Lv,X., Zheng,L., Chen,M., Fan,X.,
            Mao,J., Mao,C., Ye,Y., Xu,M. and Ji,J.
  TITLE     CPSF7 regulates liver cancer growth and metastasis by facilitating
            WWP2-FL and targeting the WWP2/PTEN/AKT signaling pathway
  JOURNAL   Biochim Biophys Acta Mol Cell Res 1867 (2), 118624 (2020)
   PUBMED   31837982
  REMARK    GeneRIF: CPSF7 promoted WWP2-FL due to the presence of PTEN
            ubiquitination sites in this longer transcript and regulates liver
            cancer growth by targeting WWP2-FL that in turn regulates AKT
            activation in a PTEN-dependent manner.
REFERENCE   6  (bases 1 to 3671)
  AUTHORS   Gruber,A.R., Martin,G., Keller,W. and Zavolan,M.
  TITLE     Cleavage factor Im is a key regulator of 3' UTR length
  JOURNAL   RNA Biol 9 (12), 1405-1412 (2012)
   PUBMED   23187700
REFERENCE   7  (bases 1 to 3671)
  AUTHORS   Kim,S., Yamamoto,J., Chen,Y., Aida,M., Wada,T., Handa,H. and
            Yamaguchi,Y.
  TITLE     Evidence that cleavage factor Im is a heterotetrameric protein
            complex controlling alternative polyadenylation
  JOURNAL   Genes Cells 15 (9), 1003-1013 (2010)
   PUBMED   20695905
  REMARK    GeneRIF: Data provide evidence that CFIm exists as a heterotetramer
            of 25-kD, 59-kD and 68-kD subunits of CFIm: CFIm25, CFIm59 and
            CFIm68.
REFERENCE   8  (bases 1 to 3671)
  AUTHORS   Ruepp,M.D., Aringhieri,C., Vivarelli,S., Cardinale,S., Paro,S.,
            Schumperli,D. and Barabino,S.M.
  TITLE     Mammalian pre-mRNA 3' end processing factor CF I m 68 functions in
            mRNA export
  JOURNAL   Mol Biol Cell 20 (24), 5211-5223 (2009)
   PUBMED   19864460
REFERENCE   9  (bases 1 to 3671)
  AUTHORS   Millevoi,S., Loulergue,C., Dettwiler,S., Karaa,S.Z., Keller,W.,
            Antoniou,M. and Vagner,S.
  TITLE     An interaction between U2AF 65 and CF I(m) links the splicing and
            3' end processing machineries
  JOURNAL   EMBO J 25 (20), 4854-4864 (2006)
   PUBMED   17024186
REFERENCE   10 (bases 1 to 3671)
  AUTHORS   Ruegsegger,U., Beyer,K. and Keller,W.
  TITLE     Purification and characterization of human cleavage factor Im
            involved in the 3' end processing of messenger RNA precursors
  JOURNAL   J Biol Chem 271 (11), 6107-6113 (1996)
   PUBMED   8626397
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AP003108.3.
            
            On Jan 28, 2020 this sequence version replaced NM_024811.3.
            
            Summary: Cleavage factor Im (CFIm) is one of six factors necessary
            for correct cleavage and polyadenylation of pre-mRNAs. CFIm is
            composed of three different subunits of 25, 59, and 68 kDa, and it
            functions as a heterotetramer, with a dimer of the 25 kDa subunit
            binding to two of the 59 or 68 kDa subunits. The protein encoded by
            this gene represents the 59 kDa subunit, which can interact with
            the splicing factor U2 snRNP Auxiliary Factor (U2AF) 65 to link the
            splicing and polyadenylation complexes. [provided by RefSeq, Oct
            2016].
            
            Transcript Variant: This variant (1) is 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 :: BC018135.1, SRR14038193.2339282.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2151119 [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-219               AP003108.3         101945-102163       c
            220-328             AP003108.3         101370-101478       c
            329-547             AP003108.3         93578-93796         c
            548-651             AP003108.3         92658-92761         c
            652-824             AP003108.3         92110-92282         c
            825-1239            AP003108.3         88293-88707         c
            1240-1358           AP003108.3         87854-87972         c
            1359-1527           AP003108.3         83957-84125         c
            1528-1695           AP003108.3         83126-83293         c
            1696-3671           AP003108.3         74917-76892         c
FEATURES             Location/Qualifiers
     source          1..3671
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11q12.2"
     gene            1..3671
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /note="cleavage and polyadenylation specific factor 7"
                     /db_xref="GeneID:79869"
                     /db_xref="HGNC:HGNC:30098"
     exon            1..219
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     CDS             146..1690
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /note="isoform 1 is encoded by transcript variant 1;
                     cleavage and polyadenylation specificity factor subunit 7;
                     cleavage factor Im complex 59 kDa subunit; pre-mRNA
                     cleavage factor I, 59 kDa subunit; CPSF 59 kDa subunit;
                     pre-mRNA cleavage factor Im 59 kDa subunit; cleavage and
                     polyadenylation specificity factor 59 kDa subunit"
                     /codon_start=1
                     /product="cleavage and polyadenylation specificity factor
                     subunit 7 isoform 1"
                     /protein_id="NP_079087.3"
                     /db_xref="CCDS:CCDS8006.2"
                     /db_xref="GeneID:79869"
                     /db_xref="HGNC:HGNC:30098"
                     /translation="MGRPESAGGGSRGPFEGGGRARRAGGIFLTLSILRTRDLPSGAM
                     SEGVDLIDIYADEEFNQDPEFNNTDQIDLYDDVLTATSQPSDDRSSSTEPPPPVRQEP
                     SPKPNNKTPAILYTYSGLRNRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAE
                     NRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPATRQNLSQFEAQARKR
                     ECVRVPRGGIPPRAHSRDSSDSADGRATPSENLVPSSARVDKPPSVLPYFNRPPSALP
                     LMGLPPPPIPPPPPLSSSFGVPPPPPGIHYQHLMPPPPRLPPHLAVPPPGAIPPALHL
                     NPAFFPPPNATVGPPPDTYMKASAPYNHHGSRDSGPPPSTVSEAEFEDIMKRNRAISS
                     SAISKAVSGASAGDYSDAIETLLTAIAVIKQSRVANDERCRVLISSLKDCLHGIEAKS
                     YSVGASGSSSRKRHRSRERSPSRSRESSRRHRDLLHNEDRHDDYFQERNREHERHRDR
                     ERDRHH"
     exon            220..328
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            329..547
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            548..651
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            652..824
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            825..1239
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            1240..1358
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            1359..1527
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            1528..1695
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            1696..3671
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3649..3654
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /note="hexamer: AATAAA"
     polyA_site      3671
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /note="major polyA site"
ORIGIN      
        1 ggagagcggt tcgcgcgctt cgggcctagt ccggactcgc cgccgccgcc gccatattcc
       61 cggtaacggg ggcgcgcggt cgggggcagg ttgggccgga agaggggtcc gggccggcac
      121 tgaggcggga agggggtcgg ttgagatggg acggccggag tctgcgggcg gagggagtcg
      181 cgggcctttt gagggaggag gcagagcgcg ccgggccggt ggcatcttcc ttactttgtc
      241 catcctccgg actcgcgatc ttccttccgg agccatgtca gaaggagtgg acttgattga
      301 tatatatgct gacgaggagt tcaaccagga cccagagttc aacaatacag atcagattga
      361 cctgtatgat gatgtgctga cagccacctc acagccctca gatgacagaa gcagcagcac
      421 tgaaccacct cctcctgttc gccaggagcc atctcccaag cccaacaaca agacccctgc
      481 aattctgtat acctacagtg gcctgcgtaa tagacgagct gccgtttatg tgggcagctt
      541 ctcctggtgg accacagacc agcagctgat ccaggttatt cgctctatag gagtctatga
      601 tgtggtggag ttgaaatttg cagagaatcg agcaaatggc cagtccaaag ggtatgctga
      661 ggtggtggta gcctctgaaa actctgtcca caaattgttg gaactcctac cagggaaagt
      721 tcttaatgga gaaaaagtgg acgtgaggcc ggccacccgg cagaacctgt cacagtttga
      781 ggcacaggct cggaaacgtg agtgtgtccg agtcccaaga gggggaatac ctccacgggc
      841 ccattcccga gattctagtg attctgctga tggacgggcc acaccctctg agaaccttgt
      901 accctcatct gctcgtgtgg ataagccccc cagtgtgctg ccctacttca atcgtcctcc
      961 ttcggccctt cccctgatgg gtctgccccc accaccaatt ccacccccac cacctctctc
     1021 ctcaagcttt ggggtccctc ctcctcctcc tggtatccac taccagcatc tcatgccccc
     1081 acctcctcga ttacctcctc atcttgctgt acctccccct ggggccatcc cacctgccct
     1141 tcacctcaat ccagccttct tccccccacc aaacgctaca gtggggcctc caccagatac
     1201 ttacatgaag gcctctgccc cctataacca ccatggcagc cgagattcgg gccctccacc
     1261 ctctacagtg agtgaagccg aatttgaaga tatcatgaag cgaaacagag caatttccag
     1321 cagtgccatt tccaaagcag tatctggagc cagtgcaggg gattacagtg acgcaattga
     1381 gacgctgctc acagccattg cggttatcaa acagtcccgg gttgccaatg atgagcgttg
     1441 ccgtgtcctc atctcctctc ttaaggactg tcttcatggc atcgaagcca agtcctacag
     1501 tgtgggtgcc agtgggagct cttccaggaa aagacatcgc tcccgggaaa ggtcacctag
     1561 ccggtcccgg gagagcagca ggaggcaccg ggatctgctt cataatgaag atcggcatga
     1621 tgattatttc caagaaagga accgggagca tgagagacac cgggatagag aacgggaccg
     1681 gcaccactga gaaaggagtc tggttggaag caaatgtttt tttaatggac ttgcatctcc
     1741 tcaccttgat caggactaaa ggacggaggc cgccccaccc ccttcccttt cctccaaacc
     1801 cctaactccc tccagacacc cagggaatac cctctgcccc acaggattga agactgcttg
     1861 gcagtcctcc caatcccaca cctcctgttt gccaggggaa agaacctaaa gacttcgtgt
     1921 gattgggagg ggtggcagac aggaagaaaa catgtccagg cccctggtct ccatagagaa
     1981 tggtgctttg tccaagaaaa cgtatgagtt tctgattctc cgggagccgt tcaatggtga
     2041 ggttgatggg aagacttcct tcccaaagaa aatagatcct ccatgcagga tctaggagag
     2101 tgactgggtg tgccaaaata tgcccagggt cctgccctca gcactagatt taatggggcc
     2161 aagagggtcc aaaccccttg ctaacatacc acttctttgt ttaactcctt tacctttcca
     2221 gccctttgag gagggaccat gagaacagaa attaccttat gaaaagctac ttctgttcct
     2281 gctttccctc tcacgtattg acggtttatt tctttgacct cccagagggc tgaactcttt
     2341 caactctgcg ctgcccagcc ttctcagtgg acttgcccct cctaagcaga gaaggcctat
     2401 gaggttgctt gctgctggga agcctggcag agccaattac caccctctgc tgcttagtgc
     2461 ttgggtacct cttgcaataa ccagctctta gttgttccct ttccctgggg cttttccatt
     2521 taacacatgg agcccttccc ccagaaggct acttccttgt tttagaggaa ggtactgccc
     2581 attgggagat ggggacattg ggacctcagc aatgaagaac ccttgtgaag taaccaggag
     2641 gaatggggaa agaagcaagt tgggcaggat atggcctact tccataggct tttctttttt
     2701 caggtttgat gtaagcatgg gcttacatcc cccaggtaca tacttttact tattgtggga
     2761 taacctggca ctagtaggca ggtaaagtca caaatttggt gtcttttcac cttttgactg
     2821 ttgacttaat agctcctctc actctgcctg gagatacttc ctgcctcaga tgaggagcca
     2881 gaagaaacag agcccgactt gaatgaactc agctcagagt tctaaggacc agcattctgg
     2941 gggccatttt ctctacaggc aaatggaatt gcttttccat aacatccaaa ttgtaatgtg
     3001 gttgctgctg aaggaggagg cagcagcgag gtcctgcggt acccatgggg tgatgctact
     3061 tctgcatgca tctacagggc atctgacacc taacatgaga cgtggcatgt gagatgagac
     3121 ttggcatgtg agacataggg tcactagaga cccttctggg tcagaggaga gagactgaat
     3181 tggactaaac ccgtcctctg ttcccagcac gtttctcata tagccctcag tcactgaggg
     3241 agtcccccgc aggattggag aggcacattc ccttgggaca gaggctacag gttggagctt
     3301 tttttcccct gtcccccaac cccatcccca cctccacttc agaacatggc accccaccca
     3361 actggccaag tgttaagtga tgtgcttatt gagagcaact ccgggtgtct tttaaaatgt
     3421 agagaaaagg tgacagttta aggaaaaata tatatagaat accagaaatg ccgtttaccc
     3481 ggagaatttt tttctcccca tttgttttgt ttttactcaa tgacaccatt tttagtttta
     3541 tttcctgata gcaaaaggaa aaaaaacacc catccctcaa aaaggccaag gtcccgtccc
     3601 cctgttgtcg gtgatttgtt tgtctttctg ataggttgaa aattgtgtaa taaacttgat
     3661 gacgctgtca a
//
