Scrt2 scratch family zinc finger 2 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Scrt2provided by MGI
Official Full Name: scratch family zinc finger 2provided by MGI
Primary source: MGI:MGI:2139287
See related: Ensembl:ENSMUSG00000060257 AllianceGenome:MGI:2139287
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
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. Acts upstream of or within negative regulation of transcription by RNA polymerase II and regulation of neuron migration. Located in nucleus. Is expressed in future hindbrain; nervous system; and retina. Orthologous to human SCRT2 (scratch family transcriptional repressor 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in whole brain E14.5 (RPKM 23.4), CNS E14 (RPKM 22.0) and 5 other tissues See more
Orthologs: human all
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Genomic context

Location:: 2 G3; 2 74.83 cM

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	2	NC_000068.8 (151923737..151937722)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	2	NC_000068.7 (152081529..152095802)

Chromosome 2 - NC_000068.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

This study revealed that a modulatory role of Scrt2 protein in cortical neurogenesis and neuronal migration.
Title: Scratch2 modulates neurogenesis and cell migration through antagonism of bHLH proteins in the developing neocortex.
From perinatal to adult stages, Scratch2 expression progressively diminishes and virtually no expression can be detected in the adult brain.
Title: The expression of Scratch genes in the developing and adult brain.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2) 1 citation

General gene information

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Markers

AW060659 (e-PCR)
- UniSTS:178734

UniSTS:234556 (e-PCR)
- UniSTS:234556

D2Mit140 (e-PCR), detects polymorphism
- UniSTS:129001

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
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 metal ion binding	IEA Inferred from Electronic Annotation more info
enables sequence-specific double-stranded DNA binding	IEA Inferred from Electronic Annotation 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 negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of neuron migration	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: transcriptional repressor scratch 2

Names: ortholog of human scratch homolog 2, zinc finger protein SCRT2; scratch homolog 2, zinc finger protein

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_001160410.2 → NP_001153882.1 transcriptional repressor scratch 2

See identical proteins and their annotated locations for NP_001153882.1

Status: VALIDATED

Source sequence(s)

AL845161

Consensus CDS

CCDS50750.1

UniProtKB/Swiss-Prot

A2AQU7, Q8BTH6

Related

ENSMUSP00000066280.4, ENSMUST00000064061.4

Conserved Domains (4) summary

COG5048
Location:216 → 283

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

sd00017
Location:220 → 240

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:218 → 240

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:260 → 284

zf-H2C2_2; Zinc-finger double domain