Zic4 Zic family member 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Zic4provided by RGD
Official Full Name: Zic family member 4provided by RGD
Primary source: RGD:1307298
See related: Ensembl:ENSRNOG00000014871 AllianceGenome:RGD:1307298
Gene type: protein coding
RefSeq status: VALIDATED
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 factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in central nervous system development and regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to human ZIC4 (Zic family member 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Restricted expression toward (RPKM 26.3) See more
Orthologs: human mouse all
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Genomic context

Location:: 8q31

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (100795860..100816276)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (91916356..91936525)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (98755104..98760737)

Chromosome 8 - NC_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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?

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General gene information

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Markers

RH143995 (e-PCR)
- UniSTS:233241

BF409650 (e-PCR)
- UniSTS:248993

BE110060 (e-PCR)
- UniSTS:245171

RH130967 (e-PCR)
- UniSTS:214250

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	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 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
involved_in central nervous system development	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
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 4

Names: zinc finger protein of the cerebellum 4

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_001394128.1 → NP_001381057.1 zinc finger protein ZIC 4

Status: VALIDATED

Source sequence(s)

JAXUCZ010000008

UniProtKB/TrEMBL

A6I228, A6I233, D4A6Z4

Related

ENSRNOP00000019938.6, ENSRNOT00000019938.8

Conserved Domains (3) summary

COG5048
Location:131 → 288

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:178 → 198

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam18366
Location:122 → 166

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

100795860..100816276

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063265570.1 → XP_063121640.1 zinc finger protein ZIC 4 isoform X3

UniProtKB/TrEMBL

A6I233
XM_063265569.1 → XP_063121639.1 zinc finger protein ZIC 4 isoform X2

UniProtKB/TrEMBL

A0A8I6ATI6, A6I233
XM_063265568.1 → XP_063121638.1 zinc finger protein ZIC 4 isoform X1

UniProtKB/TrEMBL

A6I233, A6I234

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001108176.1: Suppressed sequence

Description

NM_001108176.1: This RefSeq was removed because it is a nonsense-mediated mRNA decay (NMD) candidate.