LOCUS       NM_032153               4014 bp    mRNA    linear   PRI 17-SEP-2024
DEFINITION  Homo sapiens Zic family member 4 (ZIC4), transcript variant 3,
            mRNA.
ACCESSION   NM_032153
VERSION     NM_032153.6
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 4014)
  AUTHORS   Hesham,D., Mosaab,A., Amer,N., Al-Shehaby,N., Magdeldin,S.,
            Hassan,A., Georgiev,H., Elshoky,H., Rady,M., Aisha,K.A., Sabet,O.
            and El-Naggar,S.
  TITLE     Epigenetic silencing of ZIC4 unveils a potential tumor suppressor
            role in pediatric choroid plexus carcinoma
  JOURNAL   Sci Rep 14 (1), 21293 (2024)
   PUBMED   39266576
  REMARK    GeneRIF: Epigenetic silencing of ZIC4 unveils a potential tumor
            suppressor role in pediatric choroid plexus carcinoma.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4014)
  AUTHORS   Hopfner,F., Tietz,A.K., Ruf,V.C., Ross,O.A., Koga,S., Dickson,D.,
            Aguzzi,A., Attems,J., Beach,T., Beller,A., Cheshire,W.P., van
            Deerlin,V., Desplats,P., Deuschl,G., Duyckaerts,C., Ellinghaus,D.,
            Evsyukov,V., Flanagan,M.E., Franke,A., Frosch,M.P., Gearing,M.,
            Gelpi,E., van Gerpen,J.A., Ghetti,B., Glass,J.D., Grinberg,L.T.,
            Halliday,G., Helbig,I., Hollerhage,M., Huitinga,I., Irwin,D.J.,
            Keene,D.C., Kovacs,G.G., Lee,E.B., Levin,J., Marti,M.J.,
            Mackenzie,I., McKeith,I., Mclean,C., Mollenhauer,B., Neumann,M.,
            Newell,K.L., Pantelyat,A., Pendziwiat,M., Peters,A., Molina
            Porcel,L., Rabano,A., Matej,R., Rajput,A., Rajput,A., Reimann,R.,
            Scott,W.K., Seeley,W., Selvackadunco,S., Simuni,T., Stadelmann,C.,
            Svenningsson,P., Thomas,A., Trenkwalder,C., Troakes,C.,
            Trojanowski,J.Q., Uitti,R.J., White,C.L., Wszolek,Z.K., Xie,T.,
            Ximelis,T., Yebenes,J., Muller,U., Schellenberg,G.D., Herms,J.,
            Kuhlenbaumer,G. and Hoglinger,G.
  CONSRTM   Alzheimer's Disease Genetics Consortium
  TITLE     Common Variants Near ZIC1 and ZIC4 in Autopsy-Confirmed Multiple
            System Atrophy
  JOURNAL   Mov Disord 37 (10), 2110-2121 (2022)
   PUBMED   35997131
  REMARK    GeneRIF: Common Variants Near ZIC1 and ZIC4 in Autopsy-Confirmed
            Multiple System Atrophy.
REFERENCE   3  (bases 1 to 4014)
  AUTHORS   Han,Z., Jia,J., Lv,Y., Wang,R. and Cao,K.
  TITLE     Transcriptional expression of ZICs as an independent indicator of
            survival in gliomas
  JOURNAL   Sci Rep 11 (1), 17532 (2021)
   PUBMED   34475426
  REMARK    GeneRIF: Transcriptional expression of ZICs as an independent
            indicator of survival in gliomas.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4014)
  AUTHORS   Chen,W., Tang,D., Tang,D. and Dai,Y.
  TITLE     Epigenetic silencing of ZIC4 contributes to cancer progression in
            hepatocellular carcinoma
  JOURNAL   Cell Death Dis 11 (10), 906 (2020)
   PUBMED   33097694
  REMARK    GeneRIF: Epigenetic silencing of ZIC4 contributes to cancer
            progression in hepatocellular carcinoma.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 4014)
  AUTHORS   Yin,Y., Morgunova,E., Jolma,A., Kaasinen,E., Sahu,B.,
            Khund-Sayeed,S., Das,P.K., Kivioja,T., Dave,K., Zhong,F.,
            Nitta,K.R., Taipale,M., Popov,A., Ginno,P.A., Domcke,S., Yan,J.,
            Schubeler,D., Vinson,C. and Taipale,J.
  TITLE     Impact of cytosine methylation on DNA binding specificities of
            human transcription factors
  JOURNAL   Science 356 (6337) (2017)
   PUBMED   28473536
REFERENCE   6  (bases 1 to 4014)
  AUTHORS   Jaster,J.H.
  TITLE     Antibodies to Zic4 in paraneoplastic neurologic disorders and
            small-cell lung cancer
  JOURNAL   Neurology 63 (7), 1339 (2004)
   PUBMED   15477575
REFERENCE   7  (bases 1 to 4014)
  AUTHORS   Grinberg,I., Northrup,H., Ardinger,H., Prasad,C., Dobyns,W.B. and
            Millen,K.J.
  TITLE     Heterozygous deletion of the linked genes ZIC1 and ZIC4 is involved
            in Dandy-Walker malformation
  JOURNAL   Nat Genet 36 (10), 1053-1055 (2004)
   PUBMED   15338008
  REMARK    GeneRIF: Through physical mapping of 3q2 interstitial deletions in
            several individuals with Dandy-Walker malformation (DWM), we
            defined the first critical region associated with DWM, encompassing
            two adjacent Zinc finger in cerebellum genes, ZIC1 and ZIC4.
REFERENCE   8  (bases 1 to 4014)
  AUTHORS   Ohtsuka,M., Kikuchi,N., Ozato,K., Inoko,H. and Kimura,M.
  TITLE     Comparative analysis of a 229-kb medaka genomic region, containing
            the zic1 and zic4 genes, with Fugu, human, and mouse
  JOURNAL   Genomics 83 (6), 1063-1071 (2004)
   PUBMED   15177559
  REMARK    Erratum:[Genomics. 2004 Nov;84(5):896-7]
REFERENCE   9  (bases 1 to 4014)
  AUTHORS   Bataller,L., Wade,D.F., Graus,F., Stacey,H.D., Rosenfeld,M.R. and
            Dalmau,J.
  TITLE     Antibodies to Zic4 in paraneoplastic neurologic disorders and
            small-cell lung cancer
  JOURNAL   Neurology 62 (5), 778-782 (2004)
   PUBMED   15007130
REFERENCE   10 (bases 1 to 4014)
  AUTHORS   Bataller,L., Wade,D.F., Fuller,G.N., Rosenfeld,M.R. and Dalmau,J.
  TITLE     Cerebellar degeneration and autoimmunity to zinc-finger proteins of
            the cerebellum
  JOURNAL   Neurology 59 (12), 1985-1987 (2002)
   PUBMED   12499499
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AK056262.1, AK124600.1 and
            AC092959.6.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Feb 27, 2020 this sequence version replaced NM_032153.5.
            
            Summary: This gene encodes a member of the ZIC family of C2H2-type
            zinc finger proteins. Members of this family are important during
            development, and have been associated with X-linked visceral
            heterotaxy and holoprosencephaly type 5. This gene is closely
            linked to the gene encoding zinc finger protein of the cerebellum
            1, a related family member on chromosome 3. Heterozygous deletion
            of these linked genes is involved in Dandy-Walker malformation,
            which is a congenital cerebellar malformation. Multiple transcript
            variants have been identified for this gene. [provided by RefSeq,
            Dec 2009].
            
            Transcript Variant: This variant (3) differs in the 5' UTR, lacks a
            portion of the 5' coding region, and uses a downstream, in-frame
            start codon, compared to variant 1. The resulting isoform (3) has a
            shorter N-terminus, 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 :: AK056262.1, BC126267.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN03465403 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000383075.8/ ENSP00000372553.3
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-2056              AK056262.1         78-2133
            2057-4012           AK124600.1         2659-4614
            4013-4014           AC092959.6         132702-132703
FEATURES             Location/Qualifiers
     source          1..4014
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="3"
                     /map="3q24"
     gene            1..4014
                     /gene="ZIC4"
                     /note="Zic family member 4"
                     /db_xref="GeneID:84107"
                     /db_xref="HGNC:HGNC:20393"
                     /db_xref="MIM:608948"
     exon            1..181
                     /gene="ZIC4"
                     /inference="alignment:Splign:2.1.0"
     exon            182..266
                     /gene="ZIC4"
                     /inference="alignment:Splign:2.1.0"
     CDS             197..1201
                     /gene="ZIC4"
                     /note="isoform 3 is encoded by transcript variant 3; zinc
                     finger protein of the cerebellum 4; zinc family member 4
                     protein HZIC4; zinc finger protein ZIC 4"
                     /codon_start=1
                     /product="zinc finger protein ZIC 4 isoform 3"
                     /protein_id="NP_115529.2"
                     /db_xref="CCDS:CCDS43160.1"
                     /db_xref="GeneID:84107"
                     /db_xref="HGNC:HGNC:20393"
                     /db_xref="MIM:608948"
                     /translation="MRYKTSLVMRKRLRLYRNTLKESSSSSGHHGPQLTAASSPSVFP
                     GLHEEPPQASPSRPLNGLLRLGLPGDMYARPEPFPPGPAARSDALAAAAALHGYGGMN
                     LTVNLAAPHGPGAFFRYMRQPIKQELICKWLAADGTATPSLCSKTFSTMHELVTHVTV
                     EHVGGPEQANHICFWEECPRQGKPFKAKYKLVNHIRVHTGEKPFPCPFPGCGKVFARS
                     ENLKIHKRTHTGEKPFRCEFEGCERRFANSSDRKKHSHVHTSDKPYTCKVRGCDKCYT
                     HPSSLRKHMKVHGRSPPPSSGYDSATPSALVSPSSDCGHKSQVASSAAVAARTADLSE
                     "
     exon            267..884
                     /gene="ZIC4"
                     /inference="alignment:Splign:2.1.0"
     exon            885..1200
                     /gene="ZIC4"
                     /inference="alignment:Splign:2.1.0"
     exon            1201..4014
                     /gene="ZIC4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3984..3989
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ZIC4"
                     /note="hexamer: AATAAT"
     polyA_site      4014
                     /gene="ZIC4"
                     /note="major polyA site"
ORIGIN      
        1 ggctcatttc tgcttcatca tacattccct aactgcttcc tgaaagctgg aaaaggagaa
       61 gtgaaggatg accgcctcgc tggaaccaca aaagagaggc ttggaggggt ttgtggtccc
      121 ctctcagcca ccccgaaatg atgtgcagaa atgaggcgat cctggcaaca ggtggagtgg
      181 ggctcaaagt cagaaaatga gatacaagac atccttggtg atgaggaaac gattacggct
      241 ttaccgaaac actcttaaag agtcaagtag cagctctgga caccatggcc cccagctcac
      301 cgccgcctcc agcccctcgg tgttcccggg cctccacgag gagcctcccc aggcctcccc
      361 cagccgtcct ttgaatggac tcctgcgtct ggggctccct ggagacatgt acgcgcggcc
      421 ggagcccttc ccgccagggc ctgcggcccg cagcgacgcc ctggcagctg ccgcagccct
      481 gcatggctac gggggcatga acctgacggt gaacctcgct gcgccccacg gtcctggcgc
      541 tttcttccgc tacatgcgcc agcccatcaa acaggagctc atctgcaagt ggctggcggc
      601 cgacggcacc gcgaccccga gcctctgctc caaaactttc agcaccatgc acgagctggt
      661 cacgcacgtc accgtggagc acgtcggcgg cccggaacag gccaaccaca tttgcttctg
      721 ggaggagtgt ccgcgccagg gaaagccctt caaagccaaa tacaaacttg taaatcacat
      781 ccgcgtgcac acgggcgaga agcccttccc ttgtcctttc ccggggtgtg ggaaggtctt
      841 tgctagatca gaaaatctca aaatacacaa acgaactcac acaggcgaga agcccttcag
      901 atgcgagttc gagggctgcg agcggcgctt cgccaacagc agcgaccgta agaagcattc
      961 gcacgtgcac actagcgaca agccatacac gtgcaaggtg cggggctgcg acaagtgcta
     1021 cacgcacccc agctcgctgc gtaagcacat gaaggtgcac gggcgctcgc cgccgcccag
     1081 ctctggctac gattcggcta caccgtctgc cctcgtgtcg ccctcgtcgg actgcggcca
     1141 caagtcccag gtggcctcct cggcggcggt ggcggcgcgt accgccgact tgagcgaatg
     1201 atgtccaccg cgttgctcgc aaggtaatct cgctccgcgc agctgagcgc cccgcatctc
     1261 gcgcctgcta catcaaaggg cccgcgcaca aagcagtgtt tcttcgccac ggtgcatctt
     1321 catggtaagt taggatttct atggcaatgt gcaagtcgca ctgaaatcct gaaaggccaa
     1381 gcctggagcc cgtccaggct tttcattaag gacataatat ttacgtctaa cagacctttt
     1441 ttcttgtgta tacaagtata tatttttgtt tgacgcggac taaatcattt tcatttaatt
     1501 tccggtaaac aaaacccacg cgaatgggca cttgtacccg atcataataa aaatggataa
     1561 taatgtgaag gaagaaaaga gccgcttgaa tcgccgctca gccccctttg tttctgcttt
     1621 ctgcggtgat cagagggcgc gtttgggttt gatggcgagt ttctaaaggc gaggaaatgg
     1681 tttgtaagag gggaaagaaa aggagaaagg tctaatcaag ctcgggttgt tcaaagagtc
     1741 gggttttggg gttgaaagtg tgagtttgac ggtgcatcag catgccgcgt taggctcgcc
     1801 atggaaatac gcgcggggag cggccgcttc aaaggcggca cacttcacta cagacactct
     1861 attaagatac atttgcgctg acctttgctt tcacgccatt taatactgtc actgcgctct
     1921 ccagtatata cttcctttct agaacccgac ttgcccacgt ttaggggttc actctgcacc
     1981 ctgatgtggg aggctttggc gcaggggaca ctttcaggaa agggaggagc acaaggactc
     2041 tgtgcatctt gactgcaccc caaagaggct ccaggatcag gagtgaaaga ttttaaagca
     2101 gcctccgaag cttaacaaat gagcattcca agctcagttt tgtgcaaatc gcctttctga
     2161 ctcttgagta ggatggaggc ttaaatttaa tggcgacttg gggggaaggg agccaccctg
     2221 ggggagtctg aggagttcag actgtgccct tgggaatttc cactctggct ttccgtgcca
     2281 ctcttcttcc tttccatccc aaaagtctct tgcggcccct gaaacttgtt tctttctaag
     2341 gcagggtgtg tggtaccctt aggcctggac tagtcctaga tgcaaactca agagcccaag
     2401 gccaagggga tgtggggaag atggcaggaa agttagaagt ccatgttccc ttaattgtct
     2461 tgttgtttat tttatccaag taccccagtg aataggggaa aaataaacac agtgaaaaaa
     2521 aaaatcaaac agtggagtct tctttagtgc cagtccttgt ggttgaataa aaaggatggt
     2581 ccgctttcta ttgagctgag aaatctttga agtgggagtt attatctgag acattcctgc
     2641 ttgtcgtcct aacaacgctg atgaaacgta aaaggttctt tgtcagcgat ttgttctcct
     2701 ctctgtcaaa ctccctctgc cccgttagtt tcaaaccgtt tctaaagaga taaaaatcaa
     2761 acttctttta aaacaatatc cacacactgc atcaatacat aactttaggt ctaagtcttg
     2821 ctaagggata aacaaaagca atgcctagac atcagggtca gggcctggtc tggtgaagta
     2881 tgcagaagtt ggggggccct cgggacaagc tttgggacat gaggaaaaga atgcagagag
     2941 ggtgcaagca gaatacatac cctaagtcca taattgtgtt tctgcttctt tctgctctgg
     3001 tttgcattca atcagcccaa gttgggtcac atagatgggt ttcctttggg tacccctcag
     3061 gctcctaata ttcttgccca ggatccttgg aacttaagaa tgcagccaag caattgttaa
     3121 tatctcctgc tccttcaaag ccacctctgc taaaaataga cccattgtgt gtttcttctc
     3181 actagcagca atcaacaagc cctttctgcc gttaataaga aggagaatag ctgaaggaga
     3241 gagatatttt attaatttcc tgtttccttc agaatcttgg caattgaagt ttagaaggtt
     3301 tggtctacaa cacagtgatc gaaaatgcat gtaaatgccc atccttccct tcattcacgt
     3361 gtgaagttgt tcattttata ttgtgcccag caaagaaact ttcacccagt tcaggtttcc
     3421 ccaaaactcc tgtggtggtt ttaaaggtgg tttaaataaa taaggatgtg ctggtccccc
     3481 tactctgtgt gtgctgaata aatggcttgt aaagaagttt ttccaagctg taacccatgc
     3541 tgttattata gttgctgcaa aatgttcttc ctgatattga ttttatttgt taactgaagg
     3601 tctccatatg tttgtttata ttgctaattt atgagaaaat gtaataattg caatgaatgt
     3661 gaattataca gacaggcaaa cattttgtaa tcataattca catatacaca aaagcctggc
     3721 tgaaatcttt agactatttg taccctctct acccacactg tttgtgattt atcatctgtc
     3781 tctttagtgt cagttaaatt atgaactaac ttgaaaataa aagttgtttg actgaaagtg
     3841 attgttgaat gaacaacaaa gttgaaagcc atggcttgat cttgtaaata tataaatgta
     3901 aatgatatta aatctgtgat tccttttccc tccaaaggct tttgtgtaca tggcgctgca
     3961 tttggctatt ttctttggaa ataaataatg tgatgtttct cttcctcttt tgaa
//
