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scrt scratch [ Drosophila melanogaster (fruit fly) ]

Gene ID: 38469, updated on 9-Dec-2024

Summary

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Official Symbol
scrtprovided by FlyBase
Official Full Name
scratchprovided by FlyBase
Primary source
FLYBASE:FBgn0004880
Locus tag
Dmel_CG1130
See related
AllianceGenome:FB:FBgn0004880
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Drosophila melanogaster
Lineage
Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as
anon-EST:Liang-1.31; anon-EST:Liang-1.67; anon-WO02059370.57; BcDNA:RH71479; CG1130; clone 1.31; clone 1.67; Dmel\CG1130; lincRNA.S4061; Scrt
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. Involved in negative regulation of transcription by RNA polymerase II. Located in nucleus. Is expressed in several structures, including ganglia; imaginal disc; sensory nervous system primordium; sensory neurons; and somatic precursor cell. Orthologous to human SCRT1 (scratch family transcriptional repressor 1) and SCRT2 (scratch family transcriptional repressor 2). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs
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Genomic context

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See scrt in Genome Data Viewer
Location:
64A2-64A3; 3-10 cM
Exon count:
2
Annotation release Status Assembly Chr Location
Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) 3L NT_037436.4 (3983896..3994003)
Release 5.57 previous assembly Release 5 (GCF_000001215.2) 3L NT_037436.3 (3983896..3994003)

Chromosome 3L - NT_037436.4Genomic Context describing neighboring genes Neighboring gene uncharacterized protein Neighboring gene uncharacterized protein Neighboring gene uncharacterized protein Neighboring gene Forkhead box L1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Specificity of CNS and PNS regulatory subelements comprising pan-neural enhancers of the deadpan and scratch genes is achieved by repression. Emery JF, et al. Development, 1995 Nov. PMID 8582269
  2. McEnhancer: predicting gene expression via semi-supervised assignment of enhancers to target genes. Hafez D, et al. Genome Biol, 2017 Oct 26. PMID 29070071, Free PMC Article
  3. A sensory feedback circuit coordinates muscle activity in Drosophila. Hughes CL, et al. Mol Cell Neurosci, 2007 Jun. PMID 17498969, Free PMC Article
  4. The increasing complexity of the Snail gene superfamily in metazoan evolution. Manzanares M, et al. Trends Genet, 2001 Apr. PMID 11275308
  5. The Snail genes as inducers of cell movement and survival: implications in development and cancer. Barrallo-Gimeno A, et al. Development, 2005 Jul. PMID 15983400

See all (89) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by FlyBase

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
  
Process Evidence Code Pubs
involved_in negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in nucleus HDA PubMed 

General protein information

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Preferred Names
scratch
Names
CG1130-PA
CG1130-PB
scrt-PA
scrt-PB

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NT_037436.4 Reference assembly

    Range
    3983896..3994003
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001274461.1 → NP_001261390.1  scratch, isoform B [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_001261390.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q24140, Q9VZK2, Q9Y144
    Conserved Domains (5) summary
    COG5048
    Location:520 → 617
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:526 → 546
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00019
    Location:469 → 489
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:554 → 574
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:566 → 590
    zf-H2C2_2; Zinc-finger double domain

  2. NM_079187.5 → NP_523911.2  scratch, isoform A [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_523911.2

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q24140, Q9VZK2, Q9Y144
    Related
    FBpp0073022
    Conserved Domains (5) summary
    COG5048
    Location:520 → 617
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:526 → 546
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00019
    Location:469 → 489
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:554 → 574
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:566 → 590
    zf-H2C2_2; Zinc-finger double domain
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q24140 Q24140
Q7KMM2 Q7KMM2
Q86P75 Q86P75
Q9VZK2 Q9VZK2

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