LOCUS       NM_001142565            3487 bp    mRNA    linear   PRI 20-FEB-2025
DEFINITION  Homo sapiens cleavage and polyadenylation specific factor 7
            (CPSF7), transcript variant 3, mRNA.
ACCESSION   NM_001142565
VERSION     NM_001142565.3
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 3487)
  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 3487)
  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 3487)
  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 3487)
  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 3487)
  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 3487)
  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 3487)
  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 3487)
  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 3487)
  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 3487)
  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.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Jan 28, 2020 this sequence version replaced NM_001142565.2.
            
            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 (3) has an alternate 5' exon,
            which results in a downstream AUG start codon, and lacks an
            in-frame coding segment, as compared to variant 1. The resulting
            isoform (3) has a shorter N-terminus and lacks an internal segment,
            as compared to 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 :: AL833332.1, BX537888.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000439958.8/ ENSP00000397203.3
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-62                AP003108.3         102102-102163       c
            63-171              AP003108.3         101370-101478       c
            172-390             AP003108.3         93578-93796         c
            391-494             AP003108.3         92658-92761         c
            495-640             AP003108.3         92137-92282         c
            641-1055            AP003108.3         88293-88707         c
            1056-1174           AP003108.3         87854-87972         c
            1175-1343           AP003108.3         83957-84125         c
            1344-1511           AP003108.3         83126-83293         c
            1512-3487           AP003108.3         74917-76892         c
FEATURES             Location/Qualifiers
     source          1..3487
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11q12.2"
     gene            1..3487
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /note="cleavage and polyadenylation specific factor 7"
                     /db_xref="GeneID:79869"
                     /db_xref="HGNC:HGNC:30098"
     exon            1..62
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            63..171
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     CDS             118..1506
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /note="isoform 3 is encoded by transcript variant 3;
                     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 3"
                     /protein_id="NP_001136037.1"
                     /db_xref="CCDS:CCDS44620.1"
                     /db_xref="GeneID:79869"
                     /db_xref="HGNC:HGNC:30098"
                     /translation="MSEGVDLIDIYADEEFNQDPEFNNTDQIDLYDDVLTATSQPSDD
                     RSSSTEPPPPVRQEPSPKPNNKTPAILYTYSGLRNRRAAVYVGSFSWWTTDQQLIQVI
                     RSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPA
                     TRQNLSQFEAQARKRIPPRAHSRDSSDSADGRATPSENLVPSSARVDKPPSVLPYFNR
                     PPSALPLMGLPPPPIPPPPPLSSSFGVPPPPPGIHYQHLMPPPPRLPPHLAVPPPGAI
                     PPALHLNPAFFPPPNATVGPPPDTYMKASAPYNHHGSRDSGPPPSTVSEAEFEDIMKR
                     NRAISSSAISKAVSGASAGDYSDAIETLLTAIAVIKQSRVANDERCRVLISSLKDCLH
                     GIEAKSYSVGASGSSSRKRHRSRERSPSRSRESSRRHRDLLHNEDRHDDYFQERNREH
                     ERHRDRERDRHH"
     exon            172..390
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            391..494
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            495..640
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            641..1055
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            1056..1174
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            1175..1343
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            1344..1511
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     exon            1512..3487
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3465..3470
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /note="hexamer: AATAAA"
     polyA_site      3487
                     /gene="CPSF7"
                     /gene_synonym="CFIm59"
                     /note="major polyA site"
ORIGIN      
        1 ggagagcggt tcgcgcgctt cgggcctagt ccggactcgc cgccgccgcc gccatattcc
       61 cgtggcatct tccttacttt gtccatcctc cggactcgcg atcttccttc cggagccatg
      121 tcagaaggag tggacttgat tgatatatat gctgacgagg agttcaacca ggacccagag
      181 ttcaacaata cagatcagat tgacctgtat gatgatgtgc tgacagccac ctcacagccc
      241 tcagatgaca gaagcagcag cactgaacca cctcctcctg ttcgccagga gccatctccc
      301 aagcccaaca acaagacccc tgcaattctg tatacctaca gtggcctgcg taatagacga
      361 gctgccgttt atgtgggcag cttctcctgg tggaccacag accagcagct gatccaggtt
      421 attcgctcta taggagtcta tgatgtggtg gagttgaaat ttgcagagaa tcgagcaaat
      481 ggccagtcca aagggtatgc tgaggtggtg gtagcctctg aaaactctgt ccacaaattg
      541 ttggaactcc taccagggaa agttcttaat ggagaaaaag tggacgtgag gccggccacc
      601 cggcagaacc tgtcacagtt tgaggcacag gctcggaaac gaatacctcc acgggcccat
      661 tcccgagatt ctagtgattc tgctgatgga cgggccacac cctctgagaa ccttgtaccc
      721 tcatctgctc gtgtggataa gccccccagt gtgctgccct acttcaatcg tcctccttcg
      781 gcccttcccc tgatgggtct gcccccacca ccaattccac ccccaccacc tctctcctca
      841 agctttgggg tccctcctcc tcctcctggt atccactacc agcatctcat gcccccacct
      901 cctcgattac ctcctcatct tgctgtacct ccccctgggg ccatcccacc tgcccttcac
      961 ctcaatccag ccttcttccc cccaccaaac gctacagtgg ggcctccacc agatacttac
     1021 atgaaggcct ctgcccccta taaccaccat ggcagccgag attcgggccc tccaccctct
     1081 acagtgagtg aagccgaatt tgaagatatc atgaagcgaa acagagcaat ttccagcagt
     1141 gccatttcca aagcagtatc tggagccagt gcaggggatt acagtgacgc aattgagacg
     1201 ctgctcacag ccattgcggt tatcaaacag tcccgggttg ccaatgatga gcgttgccgt
     1261 gtcctcatct cctctcttaa ggactgtctt catggcatcg aagccaagtc ctacagtgtg
     1321 ggtgccagtg ggagctcttc caggaaaaga catcgctccc gggaaaggtc acctagccgg
     1381 tcccgggaga gcagcaggag gcaccgggat ctgcttcata atgaagatcg gcatgatgat
     1441 tatttccaag aaaggaaccg ggagcatgag agacaccggg atagagaacg ggaccggcac
     1501 cactgagaaa ggagtctggt tggaagcaaa tgttttttta atggacttgc atctcctcac
     1561 cttgatcagg actaaaggac ggaggccgcc ccaccccctt ccctttcctc caaaccccta
     1621 actccctcca gacacccagg gaataccctc tgccccacag gattgaagac tgcttggcag
     1681 tcctcccaat cccacacctc ctgtttgcca ggggaaagaa cctaaagact tcgtgtgatt
     1741 gggaggggtg gcagacagga agaaaacatg tccaggcccc tggtctccat agagaatggt
     1801 gctttgtcca agaaaacgta tgagtttctg attctccggg agccgttcaa tggtgaggtt
     1861 gatgggaaga cttccttccc aaagaaaata gatcctccat gcaggatcta ggagagtgac
     1921 tgggtgtgcc aaaatatgcc cagggtcctg ccctcagcac tagatttaat ggggccaaga
     1981 gggtccaaac cccttgctaa cataccactt ctttgtttaa ctcctttacc tttccagccc
     2041 tttgaggagg gaccatgaga acagaaatta ccttatgaaa agctacttct gttcctgctt
     2101 tccctctcac gtattgacgg tttatttctt tgacctccca gagggctgaa ctctttcaac
     2161 tctgcgctgc ccagccttct cagtggactt gcccctccta agcagagaag gcctatgagg
     2221 ttgcttgctg ctgggaagcc tggcagagcc aattaccacc ctctgctgct tagtgcttgg
     2281 gtacctcttg caataaccag ctcttagttg ttccctttcc ctggggcttt tccatttaac
     2341 acatggagcc cttcccccag aaggctactt ccttgtttta gaggaaggta ctgcccattg
     2401 ggagatgggg acattgggac ctcagcaatg aagaaccctt gtgaagtaac caggaggaat
     2461 ggggaaagaa gcaagttggg caggatatgg cctacttcca taggcttttc ttttttcagg
     2521 tttgatgtaa gcatgggctt acatccccca ggtacatact tttacttatt gtgggataac
     2581 ctggcactag taggcaggta aagtcacaaa tttggtgtct tttcaccttt tgactgttga
     2641 cttaatagct cctctcactc tgcctggaga tacttcctgc ctcagatgag gagccagaag
     2701 aaacagagcc cgacttgaat gaactcagct cagagttcta aggaccagca ttctgggggc
     2761 cattttctct acaggcaaat ggaattgctt ttccataaca tccaaattgt aatgtggttg
     2821 ctgctgaagg aggaggcagc agcgaggtcc tgcggtaccc atggggtgat gctacttctg
     2881 catgcatcta cagggcatct gacacctaac atgagacgtg gcatgtgaga tgagacttgg
     2941 catgtgagac atagggtcac tagagaccct tctgggtcag aggagagaga ctgaattgga
     3001 ctaaacccgt cctctgttcc cagcacgttt ctcatatagc cctcagtcac tgagggagtc
     3061 ccccgcagga ttggagaggc acattccctt gggacagagg ctacaggttg gagctttttt
     3121 tcccctgtcc cccaacccca tccccacctc cacttcagaa catggcaccc cacccaactg
     3181 gccaagtgtt aagtgatgtg cttattgaga gcaactccgg gtgtctttta aaatgtagag
     3241 aaaaggtgac agtttaagga aaaatatata tagaatacca gaaatgccgt ttacccggag
     3301 aatttttttc tccccatttg ttttgttttt actcaatgac accattttta gttttatttc
     3361 ctgatagcaa aaggaaaaaa aacacccatc cctcaaaaag gccaaggtcc cgtccccctg
     3421 ttgtcggtga tttgtttgtc tttctgatag gttgaaaatt gtgtaataaa cttgatgacg
     3481 ctgtcaa
//
