SCRT2 scratch family transcriptional repressor 2 [Homo sapiens (human)] - Gene

Summary

Official Symbol: SCRT2provided by HGNC
Official Full Name: scratch family transcriptional repressor 2provided by HGNC
Primary source: HGNC:HGNC:15952
See related: Ensembl:ENSG00000215397 AllianceGenome:HGNC:15952
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: ZNF898B
Summary: Enables sequence-specific double-stranded DNA binding activity. Predicted to be involved in negative regulation of extrinsic apoptotic signaling pathway via death domain receptors and negative regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of neuron migration. Predicted to be located in chromatin. [provided by Alliance of Genome Resources, Oct 2024]
Expression: Low expression observed in reference dataset See more
Orthologs: mouse all
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Genomic context

Location:: 20p13

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	20	NC_000020.11 (661596..675802, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	20	NC_060944.1 (705869..720058, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	20	NC_000020.10 (642240..656446, complement)

Chromosome 20 - NC_000020.11 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: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Scratch2 and scratch1 are expressed upon neuronal fate commitment under the control of proneural genes to promote cell migration in the developing neocortex.
Title: Scratch regulates neuronal migration onset via an epithelial-mesenchymal transition-like mechanism.

Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

G60473 (e-PCR)
- UniSTS:137729

SHGC-105848 (e-PCR)
- UniSTS:169478

AL034529 (e-PCR)
- UniSTS:94270

Z94655 (e-PCR)
- UniSTS:13905

SHGC-86223 (e-PCR)
- UniSTS:104845

SHGC-3386 (e-PCR)
- UniSTS:88489

D20S117 (e-PCR), detects polymorphism
- UniSTS:23244

D20S105 (e-PCR)
- UniSTS:6135

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	ISS Inferred from Sequence or Structural Similarity more info
enables E-box binding	ISS Inferred from Sequence or Structural Similarity 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	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in negative regulation of extrinsic apoptotic signaling pathway via death domain receptors	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of neuron migration	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in chromatin	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: transcriptional repressor scratch 2

Names: scratch 2 protein; scratch family zinc finger 2; 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_033129.4 → NP_149120.1 transcriptional repressor scratch 2

See identical proteins and their annotated locations for NP_149120.1

Status: VALIDATED

Source sequence(s)

AY129025

Consensus CDS

CCDS13006.1

UniProtKB/Swiss-Prot

Q9NQ03

Related

ENSP00000246104.5, ENST00000246104.7

Conserved Domains (3) summary

COG5048
Location:210 → 277

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

sd00017
Location:214 → 234

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam13465
Location:254 → 278

zf-H2C2_2; Zinc-finger double domain