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    Zic1 Zic family member 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 64618, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Zic1provided by RGD
    Official Full Name
    Zic family member 1provided by RGD
    Primary source
    RGD:620110
    See related
    Ensembl:ENSRNOG00000014644 AllianceGenome:RGD:620110
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including central nervous system development; positive regulation of protein import into nucleus; and regulation of smoothened signaling pathway. Predicted to act upstream of or within adult walking behavior. Predicted to be located in cytoplasm and nucleoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in Dandy-Walker syndrome and craniosynostosis. Orthologous to human ZIC1 (Zic family member 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Restricted expression toward (RPKM 173.6) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Zic1 in Genome Data Viewer
    Location:
    8q31
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (100785282..100797716, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (91908548..91918020, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (98733715..98738960, complement)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene translocase of outer mitochondrial membrane 7, pseudogene 1 Neighboring gene uncharacterized LOC134479983 Neighboring gene transfer RNA alanine (anticodon AGC) 58 Neighboring gene Zic family member 4 Neighboring gene transcriptional adaptor 3, pseudogene 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Mouse Zic1 is involved in cerebellar development. Aruga J, et al. J Neurosci, 1998 Jan 1. PMID 9412507, Free PMC Article
    2. Predominant expression of human zic in cerebellar granule cell lineage and medulloblastoma. Yokota N, et al. Cancer Res, 1996 Jan 15. PMID 8542595
    3. A novel zinc finger protein, zic, is involved in neurogenesis, especially in the cell lineage of cerebellar granule cells. Aruga J, et al. J Neurochem, 1994 Nov. PMID 7931345
    4. Heterozygous deletion of the linked genes ZIC1 and ZIC4 is involved in Dandy-Walker malformation. Grinberg I, et al. Nat Genet, 2004 Oct. PMID 15338008
    5. Molecular properties of Zic proteins as transcriptional regulators and their relationship to GLI proteins. Mizugishi K, et al. J Biol Chem, 2001 Jan 19. PMID 11053430

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription activator activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables sequence-specific double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within adult walking behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in brain development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in central nervous system development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within central nervous system development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in forebrain development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in hippocampus development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in maintenance of cell number ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in olfactory bulb development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in pattern specification process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of protein import into nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of smoothened signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in spinal cord development ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger protein ZIC 1
    Names
    Zic family member 1 (odd-paired homolog, Drosophila)
    zic protein member 1
    zinc finger protein of the cerebellum 1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_022677.1 → NP_073168.1  zinc finger protein ZIC 1

      See identical proteins and their annotated locations for NP_073168.1

      Status: PROVISIONAL

      Source sequence(s)
      AF221839
      UniProtKB/TrEMBL
      A6I226, F7FKS2, Q9JKY2
      Related
      ENSRNOP00000019860.3, ENSRNOT00000019860.6
      Conserved Domains (3) summary
      COG5189
      Location:298 → 382
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      sd00017
      Location:276 → 296
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam18366
      Location:219 → 264
      zf_ZIC; Zic proteins zinc finger domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086026.1 Reference GRCr8

      Range
      100785282..100797716 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039082089.2 → XP_038938017.1  zinc finger protein ZIC 1 isoform X1

      UniProtKB/TrEMBL
      A6I226, F7FKS2, Q9JKY2
      Conserved Domains (3) summary
      COG5189
      Location:298 → 382
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      sd00017
      Location:276 → 296
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam18366
      Location:219 → 264
      zf_ZIC; Zic proteins zinc finger domain

    2. XM_008766454.4 → XP_008764676.1  zinc finger protein ZIC 1 isoform X1

      See identical proteins and their annotated locations for XP_008764676.1

      UniProtKB/TrEMBL
      A6I226, F7FKS2, Q9JKY2
      Conserved Domains (3) summary
      COG5189
      Location:298 → 382
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      sd00017
      Location:276 → 296
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam18366
      Location:219 → 264
      zf_ZIC; Zic proteins zinc finger domain
    Nucleotide Protein Strain
    Heading Accession and Version

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