Zic3 Zic family member 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Zic3provided by RGD
Official Full Name: Zic family member 3provided by RGD
Primary source: RGD:1561261
See related: AllianceGenome:RGD:1561261
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
Also known as: RGD1561261
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 determination of left/right symmetry; lung development; and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within anterior/posterior pattern specification and heart looping. Predicted to be located in cytoplasm and nucleoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in X-linked VACTERL association; situs inversus; and visceral heterotaxy. Orthologous to human ZIC3 (Zic family member 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 11.9) and Adrenal (RPKM 1.3) See more
Orthologs: human mouse all
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Genomic context

Location:: Xq36

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (141159623..141165587)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (136123662..136129627)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (140875191..140888344)

Chromosome X - NC_086039.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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

ZIC3 (e-PCR)
- UniSTS:506650

RH130454 (e-PCR)
- UniSTS:213738

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 DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables transcription coactivator activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within anterior/posterior pattern specification	ISO Inferred from Sequence Orthology more info
involved_in atrial cardiac muscle tissue development	ISO Inferred from Sequence Orthology more info
involved_in axial mesoderm development	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in central nervous system development	IBA Inferred from Biological aspect of Ancestor more info
involved_in central nervous system segmentation	ISO Inferred from Sequence Orthology more info
involved_in cranial skeletal system development	ISO Inferred from Sequence Orthology more info
involved_in determination of digestive tract left/right asymmetry	ISO Inferred from Sequence Orthology more info
involved_in determination of left/right asymmetry in nervous system	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within determination of left/right symmetry	ISO Inferred from Sequence Orthology more info
involved_in determination of left/right symmetry	ISO Inferred from Sequence Orthology more info
involved_in determination of liver left/right asymmetry	ISO Inferred from Sequence Orthology more info
involved_in determination of pancreatic left/right asymmetry	ISO Inferred from Sequence Orthology more info
involved_in embryonic pattern specification	ISO Inferred from Sequence Orthology more info
involved_in face development	ISO Inferred from Sequence Orthology more info
involved_in forebrain development	ISO Inferred from Sequence Orthology more info
involved_in gastrulation	ISO Inferred from Sequence Orthology more info
involved_in gene expression	ISO Inferred from Sequence Orthology more info
involved_in germ-line stem cell population maintenance	ISO Inferred from Sequence Orthology more info
involved_in heart development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within heart looping	ISO Inferred from Sequence Orthology more info
involved_in heart looping	ISO Inferred from Sequence Orthology more info
involved_in hippocampus development	ISO Inferred from Sequence Orthology more info
involved_in left/right axis specification	ISO Inferred from Sequence Orthology more info
involved_in left/right pattern formation	ISO Inferred from Sequence Orthology more info
involved_in limb morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in lung development	ISO Inferred from Sequence Orthology more info
involved_in mRNA transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in maintenance of cell number	ISO Inferred from Sequence Orthology more info
involved_in mesoderm development	ISO Inferred from Sequence Orthology more info
involved_in neural plate development	ISO Inferred from Sequence Orthology more info
involved_in neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in olfactory bulb development	ISO Inferred from Sequence Orthology more info
involved_in outer ear morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in paraxial mesoderm development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within 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 transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	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 primitive streak formation	ISO Inferred from Sequence Orthology more info
involved_in skeletal system development	ISO Inferred from Sequence Orthology more info
involved_in smoothened signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in stem cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in stem cell population maintenance	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 3

Names: Zic family member 3 (odd-paired homolog, Drosophila); zinc finger protein of the cerebellum 3

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_001411817.2 → NP_001398746.1 zinc finger protein ZIC 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000021

UniProtKB/TrEMBL

A0A096MIX7, A6K4Z3

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_086039.1 Reference GRCr8

Range

141159623..141165587

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GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001109019.2: Suppressed sequence

Description

NM_001109019.2: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.