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Sall4 spalt-like transcription factor 4 [ Rattus norvegicus (Norway rat) ]

Gene ID: 686412, updated on 28-Oct-2024

Summary

Official Symbol
Sall4provided by RGD
Official Full Name
spalt-like transcription factor 4provided by RGD
Primary source
RGD:1597672
See related
EnsemblRapid:ENSRNOG00000050035 AllianceGenome:RGD:1597672
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 factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including chordate embryonic development; regulation of transcription by RNA polymerase II; and ventricular septum development. Predicted to be located in heterochromatin and nucleoplasm. Predicted to be part of protein-containing complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in Duane retraction syndrome; Duane-radial ray syndrome; Holt-Oram syndrome; IVIC syndrome; and ventricular septal defect. Orthologous to human SALL4 (spalt like transcription factor 4). [provided by Alliance of Genome Resources, Oct 2024]
Expression
Biased expression in Heart (RPKM 3.8), Muscle (RPKM 3.0) and 3 other tissues See more
Orthologs
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Genomic context

See Sall4 in Genome Data Viewer
Location:
3q42
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (177891705..177909743, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (157474067..157491055, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (165520155..165538176, complement)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene nuclear factor of activated T-cells 2 Neighboring gene uncharacterized LOC102554478 Neighboring gene ATPase phospholipid transporting 9A (putative) Neighboring gene guanine nucleotide exchange factor subunit RIC1-like Neighboring gene uncharacterized LOC134486483

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

General gene information

Markers

Gene Ontology Provided by RGD

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
 
Component Evidence Code Pubs
located_in heterochromatin ISO
Inferred from Sequence Orthology
more info
 
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
sal-like protein 4
Names
sal-like 4

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)

  1. NM_001427495.2NP_001414424.1  sal-like protein 4

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000003
    UniProtKB/TrEMBL
    A6JXQ3, M0RDM1
    Related
    ENSRNOP00000067726.1, ENSRNOT00000071119.5

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

  1. NC_086021.1 Reference GRCr8

    Range
    177891705..177909743 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)