Slc13a4 solute carrier family 13 member 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slc13a4provided by RGD
Official Full Name: solute carrier family 13 member 4provided by RGD
Primary source: RGD:1359715
See related: EnsemblRapid:ENSRNOG00000011184 AllianceGenome:RGD:1359715
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 transmembrane transporter activity. Predicted to be involved in anion transmembrane transport. Predicted to be integral component of membrane. Orthologous to human SLC13A4 (solute carrier family 13 member 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Liver (RPKM 167.4), Brain (RPKM 64.1) and 1 other tissue See more
Orthologs: human mouse all
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Genomic context

Location:: 4q22

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (64910505..64955986, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (63943369..63988852, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (62796732..62841053, complement)

Chromosome 4 - NC_086022.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

This gene produces two alternatively spliced transcripts, of which the transcript lacking exon 2 is the most abundant form. Its 5' flanking region contains CAAT- and GC-box motifs and a number of putative transcription factor binding sites.
Title: The rat Na+-sulfate cotransporter rNaS2: functional characterization, tissue distribution, and gene (slc13a4) structure.

Submit: New GeneRIF Correction

General gene information

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Markers

RH129719 (e-PCR)
- UniSTS:213014

BI295690 (e-PCR)
- UniSTS:246682

BF416409 (e-PCR)
- UniSTS:249279

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables sodium:sulfate symporter activity	ISO Inferred from Sequence Orthology more info
enables transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in sodium ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in sulfate transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info

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

General protein information

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Preferred Names: solute carrier family 13 member 4

Names: sodium sulfate cotransporter-2; solute carrier family 13 (sodium/sulfate symporter), member 4; solute carrier family 13 (sodium/sulfate symporters), member 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)

NM_001412878.1 → NP_001399807.1 solute carrier family 13 member 4

Status: VALIDATED

Source sequence(s)

JAXUCZ010000004

UniProtKB/TrEMBL

A0A8I5ZU73, A6IEP0, Q5EC47

Related

ENSRNOP00000056637.2, ENSRNOT00000059892.6

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_086022.1 Reference GRCr8

Range

64910505..64955986 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039108261.2 → XP_038964189.1 solute carrier family 13 member 4 isoform X1

UniProtKB/TrEMBL

Q5EC47

Related

ENSRNOP00000081011.2, ENSRNOT00000117863.2

Conserved Domains (1) summary

cl21473
Location:31 → 611

ArsB_NhaD_permease; Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices ...
XM_039108262.2 → XP_038964190.1 solute carrier family 13 member 4 isoform X2

Conserved Domains (2) summary

pfam03600
Location:1 → 49

CitMHS; Citrate transporter

cl21473
Location:142 → 500

ArsB_NhaD_permease; Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices ...

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001012621.1: Suppressed sequence

Description

NM_001012621.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.