LOCUS       NM_181485               1867 bp    mRNA    linear   PRI 21-SEP-2024
DEFINITION  Homo sapiens zinc finger CCCH-type and G-patch domain containing
            (ZGPAT), transcript variant 3, mRNA.
ACCESSION   NM_181485
VERSION     NM_181485.3
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 1867)
  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   2  (bases 1 to 1867)
  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   3  (bases 1 to 1867)
  AUTHORS   Fragoza,R., Das,J., Wierbowski,S.D., Liang,J., Tran,T.N., Liang,S.,
            Beltran,J.F., Rivera-Erick,C.A., Ye,K., Wang,T.Y., Yao,L., Mort,M.,
            Stenson,P.D., Cooper,D.N., Wei,X., Keinan,A., Schimenti,J.C.,
            Clark,A.G. and Yu,H.
  TITLE     Extensive disruption of protein interactions by genetic variants
            across the allele frequency spectrum in human populations
  JOURNAL   Nat Commun 10 (1), 4141 (2019)
   PUBMED   31515488
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1867)
  AUTHORS   Chen,Z., Gui,B., Zhang,Y., Xie,G., Li,W., Liu,S., Xu,B., Wu,C.,
            He,L., Yang,J., Yi,X., Yang,X., Sun,L., Liang,J. and Shang,Y.
  TITLE     Identification of a 35S U4/U6.U5 tri-small nuclear
            ribonucleoprotein (tri-snRNP) complex intermediate in spliceosome
            assembly
  JOURNAL   J Biol Chem 292 (44), 18113-18128 (2017)
   PUBMED   28878014
  REMARK    GeneRIF: Data suggest that ZIP, USP39, Prp24/p100/SART3, and Prp43
            associate to form complex instrumental in spliceosome assembly; ZIP
            regulates pre-mRNA splicing of USP39 independent of RNA binding;
            stable 35S tri-snRNP particles are enriched in Cajal body. (USP39 =
            ubiquitin specific peptidase 39; SART3 = squamous cell carcinoma
            antigen recognised by T cells 3; Prp43 = RNA helicase Prp43)
REFERENCE   5  (bases 1 to 1867)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Paulo,J.A., Cannon,J.R., Ting,L.,
            Baltier,K., Colby,G., Gebreab,F., Gygi,M.P., Parzen,H., Szpyt,J.,
            Tam,S., Zarraga,G., Pontano-Vaites,L., Swarup,S., White,A.E.,
            Schweppe,D.K., Rad,R., Erickson,B.K., Obar,R.A., Guruharsha,K.G.,
            Li,K., Artavanis-Tsakonas,S., Gygi,S.P. and Harper,J.W.
  TITLE     Architecture of the human interactome defines protein communities
            and disease networks
  JOURNAL   Nature 545 (7655), 505-509 (2017)
   PUBMED   28514442
REFERENCE   6  (bases 1 to 1867)
  AUTHORS   Feng,T. and Zhu,X.
  TITLE     Genome-wide searching of rare genetic variants in WTCCC data
  JOURNAL   Hum Genet 128 (3), 269-280 (2010)
   PUBMED   20549515
  REMARK    GeneRIF: Observational study and genome-wide association study of
            gene-disease association. (HuGE Navigator)
REFERENCE   7  (bases 1 to 1867)
  AUTHORS   Yu,W., Li,R., Gui,B. and Shang,Y.
  TITLE     sZIP, an alternative splice variant of ZIP, antagonizes
            transcription repression and growth inhibition by ZIP
  JOURNAL   J Biol Chem 285 (19), 14301-14307 (2010)
   PUBMED   20233718
  REMARK    GeneRIF: sZIP, an alternative splice variant of ZIP, antagonizes
            transcription repression and growth inhibition by ZIP in liver
            neoplasms.
REFERENCE   8  (bases 1 to 1867)
  AUTHORS   Amre,D.K., Mack,D.R., Morgan,K., Fujiwara,M., Israel,D.,
            Deslandres,C., Seidman,E.G., Lambrette,P., Costea,I., Krupoves,A.,
            Fegury,H., Dong,J., Grimard,G. and Levy,E.
  TITLE     Investigation of reported associations between the 20q13 and 21q22
            loci and pediatric-onset Crohn's disease in Canadian children
  JOURNAL   Am J Gastroenterol 104 (11), 2824-2828 (2009)
   PUBMED   19623168
  REMARK    GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
REFERENCE   9  (bases 1 to 1867)
  AUTHORS   Li,R., Zhang,H., Yu,W., Chen,Y., Gui,B., Liang,J., Wang,Y., Sun,L.,
            Yang,X., Zhang,Y., Shi,L., Li,Y. and Shang,Y.
  TITLE     ZIP: a novel transcription repressor, represses EGFR oncogene and
            suppresses breast carcinogenesis
  JOURNAL   EMBO J 28 (18), 2763-2776 (2009)
   PUBMED   19644445
REFERENCE   10 (bases 1 to 1867)
  AUTHORS   Kugathasan,S., Baldassano,R.N., Bradfield,J.P., Sleiman,P.M.,
            Imielinski,M., Guthery,S.L., Cucchiara,S., Kim,C.E.,
            Frackelton,E.C., Annaiah,K., Glessner,J.T., Santa,E., Willson,T.,
            Eckert,A.W., Bonkowski,E., Shaner,J.L., Smith,R.M., Otieno,F.G.,
            Peterson,N., Abrams,D.J., Chiavacci,R.M., Grundmeier,R., Mamula,P.,
            Tomer,G., Piccoli,D.A., Monos,D.S., Annese,V., Denson,L.A.,
            Grant,S.F. and Hakonarson,H.
  TITLE     Loci on 20q13 and 21q22 are associated with pediatric-onset
            inflammatory bowel disease
  JOURNAL   Nat Genet 40 (10), 1211-1215 (2008)
   PUBMED   18758464
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            DA848516.1, BC032612.1, AL121845.20 and BC019338.1.
            
            On Feb 27, 2020 this sequence version replaced NM_181485.2.
            
            Transcript Variant: This variant (3) differs in the 5' UTR and uses
            an alternate in-frame splice site in the middle portion of the
            coding region, compared to variant 1. This results in a shorter
            protein (isoform c), compared to isoform a. Variants 3, 4 and 5
            encode the same isoform (c).
            
            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 :: BC032612.1, SRR11853563.20868.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000355969.11/ ENSP00000348242.6
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-11                DA848516.1         12-22
            12-290              BC032612.1         13-291
            291-291             AL121845.20        12359-12359
            292-1749            BC032612.1         293-1750
            1750-1867           BC019338.1         1779-1896
FEATURES             Location/Qualifiers
     source          1..1867
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="20"
                     /map="20q13.33"
     gene            1..1867
                     /gene="ZGPAT"
                     /gene_synonym="GPATC6; GPATCH6; KIAA1847; ZC3H9; ZC3HDC9;
                     ZIP"
                     /note="zinc finger CCCH-type and G-patch domain
                     containing"
                     /db_xref="GeneID:84619"
                     /db_xref="HGNC:HGNC:15948"
                     /db_xref="MIM:619577"
     exon            1..80
                     /gene="ZGPAT"
                     /gene_synonym="GPATC6; GPATCH6; KIAA1847; ZC3H9; ZC3HDC9;
                     ZIP"
                     /inference="alignment:Splign:2.1.0"
     exon            81..692
                     /gene="ZGPAT"
                     /gene_synonym="GPATC6; GPATCH6; KIAA1847; ZC3H9; ZC3HDC9;
                     ZIP"
                     /inference="alignment:Splign:2.1.0"
     CDS             109..1644
                     /gene="ZGPAT"
                     /gene_synonym="GPATC6; GPATCH6; KIAA1847; ZC3H9; ZC3HDC9;
                     ZIP"
                     /note="isoform c is encoded by transcript variant 3; zinc
                     finger CCCH-type with G patch domain-containing protein; g
                     patch domain-containing protein 6; zinc finger CCCH
                     domain-containing protein 9; zinc finger and G patch
                     domain-containing protein; zinc finger, CCCH-type with G
                     patch domain"
                     /codon_start=1
                     /product="zinc finger CCCH-type with G patch
                     domain-containing protein isoform c"
                     /protein_id="NP_852150.2"
                     /db_xref="CCDS:CCDS13535.1"
                     /db_xref="GeneID:84619"
                     /db_xref="HGNC:HGNC:15948"
                     /db_xref="MIM:619577"
                     /translation="MDEESLESALQTYRAQLQQVELALGAGLDSSEQADLRQLQGDLK
                     ELIELTEASLVSVRKSSLLAALDEERPGRQEDAEYQAFREAITEAVEAPAAARGSGSE
                     TVPKAEAGPESAAGGQEEEEGEDEEELSGTKVSAPYYSSWGTLEYHNAMVVGTEEAED
                     GSAGVRVLYLYPTHKSLKPCPFFLEGKCRFKENCRFSHGQVVSLDELRPFQDPDLSSL
                     QAGSACLAKHQDGLWHAARITDVDNGYYTVKFDSLLLREAVVEGDGILPPLRTEATES
                     DSDSDGTGDSSYARVVGSDAVDSGTCSSAFAGWEVHTRGIGSRLLTKMGYEFGKGLGR
                     HAEGRVEPIHAVVLPRGKSLDQCVETLQKQTRVGKAGTNKPPRCRGRGARPGGRPAPR
                     NVFDFLNEKLQGQAPGALEAGAAPAGRRSKDMYHASKSAKRALSLRLFQTEEKIERTQ
                     RDIRSIQEALARNAGRHSVASAQLQEKLAGAQRQLGQLRAQEAGLQQEQRKADTHKKM
                     TEF"
     exon            693..826
                     /gene="ZGPAT"
                     /gene_synonym="GPATC6; GPATCH6; KIAA1847; ZC3H9; ZC3HDC9;
                     ZIP"
                     /inference="alignment:Splign:2.1.0"
     exon            827..979
                     /gene="ZGPAT"
                     /gene_synonym="GPATC6; GPATCH6; KIAA1847; ZC3H9; ZC3HDC9;
                     ZIP"
                     /inference="alignment:Splign:2.1.0"
     exon            980..1099
                     /gene="ZGPAT"
                     /gene_synonym="GPATC6; GPATCH6; KIAA1847; ZC3H9; ZC3HDC9;
                     ZIP"
                     /inference="alignment:Splign:2.1.0"
     exon            1100..1505
                     /gene="ZGPAT"
                     /gene_synonym="GPATC6; GPATCH6; KIAA1847; ZC3H9; ZC3HDC9;
                     ZIP"
                     /inference="alignment:Splign:2.1.0"
     exon            1506..1867
                     /gene="ZGPAT"
                     /gene_synonym="GPATC6; GPATCH6; KIAA1847; ZC3H9; ZC3HDC9;
                     ZIP"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1842..1847
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ZGPAT"
                     /gene_synonym="GPATC6; GPATCH6; KIAA1847; ZC3H9; ZC3HDC9;
                     ZIP"
                     /note="hexamer: ATTAAA"
     polyA_site      1867
                     /gene="ZGPAT"
                     /gene_synonym="GPATC6; GPATCH6; KIAA1847; ZC3H9; ZC3HDC9;
                     ZIP"
                     /note="major polyA site"
ORIGIN      
        1 acttccggaa gcggcggcgc tcgggaggaa gtgccgatcg gctgctgggg cgaaaagggg
       61 gcgccgggcc gctctagccg ccctggtcca gcgcctccct ctctcagcat ggacgaggag
      121 agcctggagt cggccttgca gacctaccgt gcgcagctgc agcaggtgga gctggccttg
      181 ggcgccggcc tggattcgtc tgagcaggct gacctgcgcc agctgcaggg ggacctgaag
      241 gagctcatcg agctcaccga ggccagcctg gtgtctgtca ggaagagcag cttgttggcc
      301 gcgctggacg aagagcgccc gggccgccag gaagatgctg agtaccaggc tttccgggag
      361 gccatcactg aggcggtgga ggcaccagca gcggcccgtg ggtccggatc agagaccgtt
      421 cctaaagcag aggcggggcc agaatctgcg gcaggtgggc aggaggagga agagggagag
      481 gacgaggaag agctgagtgg gacaaaggtg agcgcgccct actacagctc ctggggcact
      541 ctggagtatc acaacgccat ggtggtggga acggaagagg cggaggatgg ctcggcgggt
      601 gtccgtgtgc tttacctgta ccccactcac aagtctctga agccgtgccc gttcttcctg
      661 gagggaaagt gccgctttaa ggagaactgc aggttctccc atgggcaggt ggtctctctg
      721 gatgagctgc gccccttcca ggacccagac ctgagctccc tgcaggccgg ctctgcgtgt
      781 ctggccaagc accaggatgg cctctggcac gcagcacgca tcaccgatgt ggacaacggc
      841 tactacacag tcaagtttga ctcgctgctg ctgagggagg ccgtggtgga gggggacggc
      901 atcctgcccc cactgcgcac agaggccaca gagtccgact cagacagcga cggtacgggt
      961 gactccagct atgccagagt ggtggggtca gatgctgtgg actctgggac ctgcagctct
     1021 gcctttgctg gctgggaggt gcacacgcga ggtataggct ccagactcct caccaagatg
     1081 ggctatgagt ttggcaaggg tttgggccga cacgcggaag gccgggtgga gcccatccat
     1141 gctgtggtgt tgcctcgagg gaagtcgctg gaccagtgtg tggagaccct gcagaagcag
     1201 accagggttg gcaaggctgg caccaacaag ccccccaggt gccggggaag aggggccagg
     1261 cctgggggcc gcccagctcc tcggaatgtg tttgacttcc tcaatgaaaa gctgcaaggt
     1321 caggctcctg gggccctaga agccggggcg gccccagcgg ggaggaggag caaggacatg
     1381 taccatgcca gcaagagtgc caagcgggcc ctgagcctgc ggctcttcca gactgaggag
     1441 aagatcgagc gaacccagcg ggacatcagg agcatccagg aggctctcgc ccgcaacgct
     1501 ggccggcata gcgtggcgtc agcccagctg caggagaagc tggcaggagc ccagcgccag
     1561 ctggggcagc tccgggctca ggaagccggc ctgcagcagg agcagaggaa ggcagacacc
     1621 cacaagaaga tgactgagtt ctagagaccc cacaagcact atggacgaag cgtgggaccc
     1681 cagcacgggc tgccctcagg aagaccagtg ttgcccgagg aggggccggc ctgctggcct
     1741 ggggcgtgca gacactgctg agtggagaca gagctgcggg gtcccatctg gacacttact
     1801 tgcccacctg ccagtgtctt gggcatttcc ttggcaagga cattaaagtg atttcatcac
     1861 agtgtca
//
