salr spalt-related [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: salrprovided by FlyBase
Official Full Name: spalt-relatedprovided by FlyBase
Primary source: FLYBASE:FBgn0000287
Locus tag: Dmel_CG4881
See related: AllianceGenome:FB:FBgn0000287
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: 32F; Cf3; CG4881; Dmel\CG4881; sal; Sal; sal-r; Sal-r; salR; Salr; spalt; Spalt
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 several processes, including antennal joint development; reproductive structure development; and sensory perception of sound. Located in nucleus. Is expressed in several structures, including CNS glial cell; central brain primordium; epithelium; ganglia; and imaginal disc. Used to study carcinoma. Human ortholog(s) of this gene implicated in several diseases, including Duane retraction syndrome; Duane-radial ray syndrome; Holt-Oram syndrome; IVIC syndrome; and Townes-Brocks syndrome. Orthologous to several human genes including SALL1 (spalt like transcription factor 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: 32E4-32F1; 2-44 cM

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	2L	NT_033779.5 (11358873..11373636)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	2L	NT_033779.4 (11358873..11373636)

Chromosome 2L - NT_033779.5 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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The relationship between Sal, Dve, and Iro-C in wing vein specification is quite similar to that in ommatidial cell-type specification. Our results provide information about the conserved function of dve regulatory motifs in cell differentiation.
Title: Spalt-mediated dve repression is a critical regulatory motif and coordinates with Iroquois complex in Drosophila vein formation.
Identification of Salm/Salr candidate target genes in Drosophila melanogaster.
Title: The Spalt Transcription Factors Generate the Transcriptional Landscape of the Drosophila melanogaster Wing Pouch Central Region.
Drosophila Salr is a transcriptional repressors
Title: Drosophila Sal and Salr are transcriptional repressors.
the spalt zinc-finger transcription factors (spalt major and spalt-related) are part of the molecular mechanisms regulating R3/R4 specification and planar cell polarity establishment
Title: Spalt transcription factors are required for R3/R4 specification and establishment of planar cell polarity in the Drosophila eye.
Required late in pupation for photoreceptor differentiation.
Title: Two-step process for photoreceptor formation in Drosophila.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

NCBI Orthologs

Orthologs from OrthoDB

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
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in antennal joint development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in imaginal disc-derived wing vein morphogenesis	TAS Traceable Author Statement more info	PubMed
involved_in male genitalia development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in male gonad development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in sensory organ development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in sensory perception of sound	IGI Inferred from Genetic Interaction more info	PubMed
involved_in sensory perception of sound	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: spalt-related

Names: CG4881-PA; CG4881-PB; CG4881-PC; Spalt-related; chorion factor 3; sal related; sal-related; salr-PA; salr-PB; salr-PC; spalt; spalt related

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

NT_033779.5 Reference assembly

Range

11358873..11373636

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001259054.2 → NP_001245983.1 spalt-related, isoform C [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001245983.1

Status: REVIEWED

UniProtKB/TrEMBL

Q5U0U1, Q9VKH3

Conserved Domains (4) summary

cd11674
Location:1013 → 1061

lambda-1; inner capsid protein lambda-1 or VP3

sd00017
Location:583 → 603

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:1040 → 1062

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:595 → 620

zf-H2C2_2; Zinc-finger double domain
NM_164965.2 → NP_723669.1 spalt-related, isoform B [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_723669.1

Status: REVIEWED

UniProtKB/TrEMBL

Q5U0U1, Q9VKH3

Related

FBpp0079823

Conserved Domains (4) summary

cd11674
Location:1013 → 1061

lambda-1; inner capsid protein lambda-1 or VP3

sd00017
Location:583 → 603

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:1040 → 1062

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:595 → 620

zf-H2C2_2; Zinc-finger double domain
NM_078824.3 → NP_523548.1 spalt-related, isoform A [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_523548.1

Status: REVIEWED

UniProtKB/TrEMBL

Q5U0U1, Q9VKH3

Related

FBpp0079822

Conserved Domains (4) summary

cd11674
Location:1013 → 1061

lambda-1; inner capsid protein lambda-1 or VP3

sd00017
Location:583 → 603

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:1040 → 1062

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:595 → 620

zf-H2C2_2; Zinc-finger double domain