Zic2 Zic family member 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Zic2provided by RGD
Official Full Name: Zic family member 2provided by RGD
Primary source: RGD:1311174
See related: Ensembl:ENSRNOG00000054879 AllianceGenome:RGD:1311174
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 activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and chromatin DNA binding activity. Predicted to be involved in nervous system development; regulation of transcription, DNA-templated; and visual perception. Predicted to act upstream of or within several processes, including cilium organization; neural tube closure; and positive regulation of nodal signaling pathway involved in determination of lateral mesoderm left/right asymmetry. Predicted to be located in cytoplasm and nuclear body. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in holoprosencephaly and holoprosencephaly 5. Orthologous to human ZIC2 (Zic family member 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Restricted expression toward (RPKM 79.3) See more
Orthologs: human mouse all
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Genomic context

Location:: 15q25

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	15	NC_086033.1 (105982711..105988167)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	15	NC_051350.1 (99576697..99581522)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	15	NC_005114.4 (108908366..108913812)

Chromosome 15 - NC_086033.1 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?

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General gene information

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Markers

UniSTS:496749 (e-PCR)
- UniSTS:496749

Zic2 (e-PCR), detects polymorphism
- UniSTS:496749

UniSTS:466092 (e-PCR)
- UniSTS:466092

Zic2 (e-PCR), detects polymorphism
- UniSTS:466092

UniSTS:144841 (e-PCR)
- UniSTS:144841

Zic2 (e-PCR), detects polymorphism
- UniSTS:144841

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
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 chromatin DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
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
acts_upstream_of_or_within central nervous system development	ISO Inferred from Sequence Orthology more info
involved_in central nervous system segmentation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cilium organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within developmental pigmentation	ISO Inferred from Sequence Orthology more info
involved_in gene expression	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within nervous system development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neural crest cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in neural plate development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neural tube closure	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within nodal signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in paraxial mesoderm development	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	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 retinal ganglion cell axon guidance	ISO Inferred from Sequence Orthology more info
involved_in visual perception	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in nuclear body	IEA Inferred from Electronic Annotation more info
located_in nuclear body	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 2

Names: Zic family member 2 (odd-paired homolog, Drosophila); zinc finger protein of the cerebellum 2

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_001108392.2 → NP_001101862.2 zinc finger protein ZIC 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000015

UniProtKB/TrEMBL

A0A0G2JWR6, A6HUM0

Related

ENSRNOP00000069986.2, ENSRNOT00000089455.2

Conserved Domains (3) summary

COG5189
Location:328 → 412

SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]

sd00017
Location:306 → 326

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam18366
Location:249 → 294

zf_ZIC; Zic proteins zinc finger domain