LOCUS       NM_016207               2259 bp    mRNA    linear   PRI 24-JUN-2024
DEFINITION  Homo sapiens cleavage and polyadenylation specific factor 3
            (CPSF3), transcript variant 1, mRNA.
ACCESSION   NM_016207
VERSION     NM_016207.4
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 2259)
  AUTHORS   Zhang,Y., Liu,D., Guo,D., Lin,W., Lu,W., Hu,L., Chen,S. and Chen,C.
  TITLE     CPSF3 regulates alternative polyadenylation of CNIH2 to promote
            esophageal squamous cell carcinoma progression
  JOURNAL   Cancer Lett 593, 216925 (2024)
   PUBMED   38718887
  REMARK    GeneRIF: CPSF3 regulates alternative polyadenylation of CNIH2 to
            promote esophageal squamous cell carcinoma progression.
REFERENCE   2  (bases 1 to 2259)
  AUTHORS   Alahmari,A.A., Chaubey,A.H., Jonnakuti,V.S., Tisdale,A.A.,
            Schwarz,C.D., Cornwell,A.C., Maraszek,K.E., Paterson,E.J., Kim,M.,
            Venkat,S., Gomez,E.C., Wang,J., Gurova,K.V., Yalamanchili,H.K. and
            Feigin,M.E.
  TITLE     CPSF3 inhibition blocks pancreatic cancer cell proliferation
            through disruption of core histone mRNA processing
  JOURNAL   RNA 30 (3), 281-297 (2024)
   PUBMED   38191171
  REMARK    GeneRIF: CPSF3 inhibition blocks pancreatic cancer cell
            proliferation through disruption of core histone mRNA processing.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2259)
  AUTHORS   Shen,P., Ye,K., Xiang,H., Zhang,Z., He,Q., Zhang,X., Cai,M.C.,
            Chen,J., Sun,Y., Lin,L., Qi,C., Zhang,M., Cheung,L.W.T., Shi,T.,
            Yin,X., Li,Y., Di,W., Zang,R., Tan,L. and Zhuang,G.
  TITLE     Therapeutic targeting of CPSF3-dependent transcriptional
            termination in ovarian cancer
  JOURNAL   Sci Adv 9 (47), eadj0123 (2023)
   PUBMED   37992178
  REMARK    GeneRIF: Therapeutic targeting of CPSF3-dependent transcriptional
            termination in ovarian cancer.
REFERENCE   4  (bases 1 to 2259)
  AUTHORS   Huang,J., Liu,X., Sun,Y., Li,Z., Lin,M.H., Hamilton,K.,
            Mandel,C.R., Sandmeir,F., Conti,E., Oyala,P.H. and Tong,L.
  TITLE     An examination of the metal ion content in the active sites of
            human endonucleases CPSF73 and INTS11
  JOURNAL   J Biol Chem 299 (4), 103047 (2023)
   PUBMED   36822327
  REMARK    GeneRIF: An examination of the metal ion content in the active
            sites of human endonucleases CPSF73 and INTS11.
REFERENCE   5  (bases 1 to 2259)
  AUTHORS   Arnadottir,G.A., Oddsson,A., Jensson,B.O., Gisladottir,S.,
            Simon,M.T., Arnthorsson,A.O., Katrinardottir,H., Fridriksdottir,R.,
            Ivarsdottir,E.V., Jonasdottir,A., Jonasdottir,A., Barrick,R.,
            Saemundsdottir,J., le Roux,L., Oskarsson,G.R., Asmundsson,J.,
            Steffensen,T., Gudmundsson,K.R., Ludvigsson,P., Jonsson,J.J.,
            Masson,G., Jonsdottir,I., Holm,H., Jonasson,J.G., Magnusson,O.T.,
            Thorarensen,O., Abdenur,J., Norddahl,G.L., Gudbjartsson,D.F.,
            Bjornsson,H.T., Thorsteinsdottir,U., Sulem,P. and Stefansson,K.
  TITLE     Population-level deficit of homozygosity unveils CPSF3 as an
            intellectual disability syndrome gene
  JOURNAL   Nat Commun 13 (1), 705 (2022)
   PUBMED   35121750
  REMARK    GeneRIF: Population-level deficit of homozygosity unveils CPSF3 as
            an intellectual disability syndrome gene.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2259)
  AUTHORS   McCracken,S., Fong,N., Yankulov,K., Ballantyne,S., Pan,G.,
            Greenblatt,J., Patterson,S.D., Wickens,M. and Bentley,D.L.
  TITLE     The C-terminal domain of RNA polymerase II couples mRNA processing
            to transcription
  JOURNAL   Nature 385 (6614), 357-361 (1997)
   PUBMED   9002523
REFERENCE   7  (bases 1 to 2259)
  AUTHORS   Jenny,A., Minvielle-Sebastia,L., Preker,P.J. and Keller,W.
  TITLE     Sequence similarity between the 73-kilodalton protein of mammalian
            CPSF and a subunit of yeast polyadenylation factor I
  JOURNAL   Science 274 (5292), 1514-1517 (1996)
   PUBMED   8929409
REFERENCE   8  (bases 1 to 2259)
  AUTHORS   Murthy,K.G. and Manley,J.L.
  TITLE     The 160-kD subunit of human cleavage-polyadenylation specificity
            factor coordinates pre-mRNA 3'-end formation
  JOURNAL   Genes Dev 9 (21), 2672-2683 (1995)
   PUBMED   7590244
REFERENCE   9  (bases 1 to 2259)
  AUTHORS   Jenny,A., Hauri,H.P. and Keller,W.
  TITLE     Characterization of cleavage and polyadenylation specificity factor
            and cloning of its 100-kilodalton subunit
  JOURNAL   Mol Cell Biol 14 (12), 8183-8190 (1994)
   PUBMED   7969155
REFERENCE   10 (bases 1 to 2259)
  AUTHORS   Thuresson,A.C., Astrom,J., Astrom,A., Gronvik,K.O. and Virtanen,A.
  TITLE     Multiple forms of poly(A) polymerases in human cells
  JOURNAL   Proc Natl Acad Sci U S A 91 (3), 979-983 (1994)
   PUBMED   8302877
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DC420903.1, BC020211.1 and
            AA635764.1.
            
            On Nov 22, 2018 this sequence version replaced NM_016207.3.
            
            Summary: This gene encodes a member of the metallo-beta-lactamase
            family. The encoded protein is a 73kDa subunit of the cleavage and
            polyadenylation specificity factor and functions as an endonuclease
            that recognizes the pre-mRNA 3'-cleavage site AAUAAA prior to
            polyadenylation. It also cleaves after the pre-mRNA sequence ACCCA
            during histone 3'-end pre-mRNA processing. [provided by RefSeq, Oct
            2012].
            
            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 :: SRR1660803.92137.1,
                                           SRR1803615.243113.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000238112.8/ ENSP00000238112.3
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-85                DC420903.1         118-202
            86-2256             BC020211.1         1-2171
            2257-2259           AA635764.1         26-28               c
FEATURES             Location/Qualifiers
     source          1..2259
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="2"
                     /map="2p25.1"
     gene            1..2259
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /note="cleavage and polyadenylation specific factor 3"
                     /db_xref="GeneID:51692"
                     /db_xref="HGNC:HGNC:2326"
                     /db_xref="MIM:606029"
     exon            1..170
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     CDS             121..2175
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /note="isoform a is encoded by transcript variant 1;
                     cleavage and polyadenylation specificity factor subunit 3;
                     mRNA 3'-end-processing endonuclease CPSF-73; cleavage and
                     polyadenylation specific factor 3, 73kDa"
                     /codon_start=1
                     /product="cleavage and polyadenylation specificity factor
                     subunit 3 isoform a"
                     /protein_id="NP_057291.1"
                     /db_xref="CCDS:CCDS1664.1"
                     /db_xref="GeneID:51692"
                     /db_xref="HGNC:HGNC:2326"
                     /db_xref="MIM:606029"
                     /translation="MSAIPAEESDQLLIRPLGAGQEVGRSCIILEFKGRKIMLDCGIH
                     PGLEGMDALPYIDLIDPAEIDLLLISHFHLDHCGALPWFLQKTSFKGRTFMTHATKAI
                     YRWLLSDYVKVSNISADDMLYTETDLEESMDKIETINFHEVKEVAGIKFWCYHAGHVL
                     GAAMFMIEIAGVKLLYTGDFSRQEDRHLMAAEIPNIKPDILIIESTYGTHIHEKREER
                     EARFCNTVHDIVNRGGRGLIPVFALGRAQELLLILDEYWQNHPELHDIPIYYASSLAK
                     KCMAVYQTYVNAMNDKIRKQININNPFVFKHISNLKSMDHFDDIGPSVVMASPGMMQS
                     GLSRELFESWCTDKRNGVIIAGYCVEGTLAKHIMSEPEEITTMSGQKLPLKMSVDYIS
                     FSAHTDYQQTSEFIRALKPPHVILVHGEQNEMARLKAALIREYEDNDEVHIEVHNPRN
                     TEAVTLNFRGEKLAKVMGFLADKKPEQGQRVSGILVKRNFNYHILSPCDLSNYTDLAM
                     STVKQTQAIPYTGPFNLLCYQLQKLTGDVEELEIQEKPALKVFKNITVIQEPGMVVLE
                     WLANPSNDMYADTVTTVILEVQSNPKIRKGAVQKVSKKLEMHVYSKRLEIMLQDIFGE
                     DCVSVKDDSILSVTVDGKTANLNLETRTVECEEGSEDDESLREMVELAAQRLYEALTP
                     VH"
     exon            171..234
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            235..332
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            333..461
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            462..639
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            640..729
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            730..880
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            881..1056
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            1057..1215
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            1216..1362
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            1363..1515
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            1516..1624
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            1625..1723
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            1724..1818
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            1819..1906
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            1907..1976
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            1977..2073
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     exon            2074..2259
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2232..2237
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /note="hexamer: AATAAA"
     polyA_site      2259
                     /gene="CPSF3"
                     /gene_synonym="CPSF-73; CPSF73; NEDMHS; NEDMHSN"
                     /note="major polyA site"
ORIGIN      
        1 ggaagttgtg ctcttggtga atggggttct tcctttttta tttaccggtg gctgtgcttc
       61 caatttagga agaccccggc gacctgttcc tcacccccgc ttcgccctca cactttcggg
      121 atgtctgcga ttcctgctga ggagagcgac cagctgctga tccgacccct tggagctggg
      181 caagaagtag gaagatcatg tattattctc gagttcaaag gaagaaaaat aatgctcgac
      241 tgtgggatcc accctggcct agaaggaatg gatgctcttc cttatattga tttaattgac
      301 ccagctgaga ttgatctcct attaattagt catttccatt tggatcactg tggagctctg
      361 ccctggtttc tacagaagac aagtttcaaa ggaagaacat ttatgactca tgccacaaaa
      421 gctatttata gatggcttct ttctgattat gtcaaagtta gtaacatatc agcagacgac
      481 atgctgtata ccgagacaga tttggaagaa agcatggaca aaattgaaac tatcaacttt
      541 catgaagtta aggaagttgc gggaatcaag ttttggtgtt accatgcagg tcacgtccta
      601 ggagccgcca tgttcatgat tgagatcgca ggcgtgaagc ttttgtacac tggtgatttc
      661 tcaagacaag aagataggca cttaatggca gctgaaattc ctaatattaa gcctgatatt
      721 cttatcattg aatctactta tgggacccat atccatgaga aacgtgaaga gcgagaagca
      781 agattctgta acactgtcca cgatattgta aacagaggag gcaggggtct cattcctgtc
      841 tttgctcttg gaagggctca ggagctgctc ttgattctag atgagtactg gcagaatcac
      901 ccagaactac atgacattcc aatatactat gcatcatctt tggccaagaa gtgtatggca
      961 gtgtaccaga catatgtaaa tgccatgaat gacaaaatcc gcaaacagat caacatcaat
     1021 aatccctttg ttttcaaaca cattagtaac ctcaagagca tggatcattt tgatgacatt
     1081 ggtcccagtg ttgtaatggc ctccccaggc atgatgcaaa gtggcttatc cagagaatta
     1141 tttgaaagct ggtgtactga taagaggaat ggtgtcatta tagcgggata ctgtgtagaa
     1201 gggacacttg ccaagcacat catgtctgaa cctgaagaaa tcactactat gtctggacag
     1261 aagttaccac tgaaaatgtc tgttgattac atttctttct cagctcacac ggattaccag
     1321 caaaccagtg aatttattcg tgctttgaaa ccgcctcatg tgattttagt ccatggagaa
     1381 cagaatgaaa tggccagatt gaaagcagca ctgattcgag aatatgaaga taacgatgaa
     1441 gttcacatag aggttcataa tcctcggaat acagaagcag tgaccttaaa cttcagagga
     1501 gaaaaactag ccaaggttat gggattttta gcagacaaaa aaccagaaca aggccagcgg
     1561 gtctcaggaa tacttgttaa aagaaacttt aattatcaca tactttctcc ttgcgacctg
     1621 tccaattata ctgacctggc catgagcacg gtgaagcaga cccaagccat tccatatact
     1681 ggtcccttta atttgctctg ttaccagctg cagaaattga caggtgatgt ggaagaatta
     1741 gaaattcaag aaaaacctgc tctgaaagtg ttcaaaaata ttactgtaat acaagaacca
     1801 ggcatggtgg tattagaatg gctggcaaac ccttctaatg atatgtatgc agatacagta
     1861 acaactgtga tattggaagt tcagtcaaat cccaaaataa gaaaaggtgc agtacagaag
     1921 gtttctaaaa aattagaaat gcacgtttac agcaagaggt tggagatcat gctccaggac
     1981 atatttggag aagactgtgt aagtgtaaag gatgactcta ttcttagcgt cacagtggac
     2041 gggaaaactg ccaaccttaa cttggagaca cggactgtag aatgtgaaga gggaagtgaa
     2101 gacgatgaat ccctccgaga aatggtggag ctggctgcac agagactgta cgaggccctg
     2161 acgccagttc actgagactg tgcctgtata tgaactttga aaaaatactt gactctactt
     2221 ttgttaccta aaataaaatg cattcgtttc tctggggga
//
