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

Summary

Official Symbol: Zic1provided by RGD
Official Full Name: Zic family member 1provided by RGD
Primary source: RGD:620110
See related: EnsemblRapid: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 positive regulation of transcription by RNA polymerase II. 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, Dec 2024]
Expression: Restricted expression toward (RPKM 173.6) See more
Orthologs: human mouse all
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Genomic context

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_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

This study showed that spontaneous Zic1 mutations causing cerebellar pathology are impaired in motor functions during the neonatal period.
Title: Behavioral effects of neonatal lesions on the cerebellar system.

Submit: New GeneRIF Correction

General gene information

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Markers

UniSTS:466091 (e-PCR)
- UniSTS:466091

Zic1 (e-PCR), detects polymorphism
- UniSTS:466091

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 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
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 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
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)

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, ENSRNOT00000019860.7

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

NC_086026.1 Reference GRCr8

Range

100785282..100797716 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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