Sall2 spalt-like transcription factor 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sall2provided by RGD
Official Full Name: spalt-like transcription factor 2provided by RGD
Primary source: RGD:1309272
See related: EnsemblRapid:ENSRNOG00000013287 AllianceGenome:RGD:1309272
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 and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in eye development; negative regulation of transcription by RNA polymerase II; and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within neural tube development. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in coloboma. Orthologous to human SALL2 (spalt like transcription factor 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Brain (RPKM 70.2), Lung (RPKM 21.8) and 8 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 15p14

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	15	NC_086033.1 (27494831..27512402, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	15	NC_051350.1 (25021345..25038918, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	15	NC_005114.4 (28728471..28746042, complement)

Chromosome 15 - NC_086033.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

These data establish Sall2 as a link between p75 neurotrophin receptor and transcriptional events that regulate the growth and development of neuronal cells.
Title: Sall2 is a novel p75NTR-interacting protein that links NGF signalling to cell cycle progression and neurite outgrowth.

Submit: New GeneRIF Correction

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

AI576082 (e-PCR)
- UniSTS:248608

PMC140661P1 (e-PCR)
- UniSTS:270951

MARC_14473-14474:1010604369:1 (e-PCR)
- UniSTS:267682

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific	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 transcription regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in eye development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neural tube development	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

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

Go to the top of the page Help

Preferred Names: sal-like protein 2

Names: sal-like 2

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001107262.1 → NP_001100732.1 sal-like protein 2 isoform 2

See identical proteins and their annotated locations for NP_001100732.1

Status: PROVISIONAL

Source sequence(s)

CH474040

UniProtKB/TrEMBL

A6KEH5, D4ADE6

Related

ENSRNOP00000017730.4, ENSRNOT00000017730.7

Conserved Domains (3) summary

sd00017
Location:374 → 394

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:690 → 711

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:386 → 411

zf-H2C2_2; Zinc-finger double domain
NM_001431420.1 → NP_001418349.1 sal-like protein 2 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000015

UniProtKB/TrEMBL

A0A0G2K6M7

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086033.1 Reference GRCr8

Range

27494831..27512402 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006251884.5 → XP_006251946.1 sal-like protein 2 isoform X1

Conserved Domains (3) summary

sd00017
Location:372 → 392

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:688 → 709

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:384 → 409

zf-H2C2_2; Zinc-finger double domain