Abca4 ATP binding cassette subfamily A member 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Abca4provided by RGD
Official Full Name: ATP binding cassette subfamily A member 4provided by RGD
Primary source: RGD:1309445
See related: EnsemblRapid:ENSRNOG00000012563 AllianceGenome:RGD:1309445
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: ABCR
Summary: Predicted to enable ATPase-coupled transmembrane transporter activity; glycerophospholipid flippase activity; and retinal binding activity. Predicted to be involved in phospholipid translocation and retinal metabolic process. Predicted to act upstream of or within phospholipid transfer to membrane; photoreceptor cell maintenance; and visual perception. Predicted to be located in cytoplasmic vesicle; endoplasmic reticulum; and photoreceptor outer segment. Predicted to be active in intracellular membrane-bounded organelle. Human ortholog(s) of this gene implicated in fundus dystrophy and retinal degeneration (multiple). Orthologous to human ABCA4 (ATP binding cassette subfamily A member 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 13.4), Brain (RPKM 3.8) and 7 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 2q42

Exon count:: 50

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (212849470..212986730)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (210164813..210302069)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (225645539..225783288)

Chromosome 2 - NC_086020.1 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 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?

miR-351-3p promotes rat amniotic fluid-derived mesenchymal stromal cell proliferation via targeting the coding sequence of Abca4.
Title: miR-351-3p promotes rat amniotic fluid-derived mesenchymal stromal cell proliferation via targeting the coding sequence of Abca4.
Glycosylated ABCA4 protein is expressed in rat choroid plexus epithelial cells. ABCA4 may play a role in the function of the blood-cerebrospinal fluid barrier and affect CSF conditions.
Title: Retinal-specific ATP-binding cassette transporter (ABCR/ABCA4) is expressed at the choroid plexus in rat brain.

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

Abca4 (e-PCR), detects polymorphism
- UniSTS:546611

RH134002 (e-PCR)
- UniSTS:217284

RH143198 (e-PCR)
- UniSTS:232445

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 11-cis retinal binding	ISO Inferred from Sequence Orthology more info
enables ATP hydrolysis activity	ISO Inferred from Sequence Orthology more info
enables ATPase-coupled intramembrane lipid transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables ATPase-coupled intramembrane lipid transporter activity	ISO Inferred from Sequence Orthology more info
enables ATPase-coupled transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables N-retinylidene-phosphatidylethanolamine flippase activity	ISO Inferred from Sequence Orthology more info
enables all-trans retinal binding	ISO Inferred from Sequence Orthology more info
enables flippase activity	ISO Inferred from Sequence Orthology more info
enables phosphatidylethanolamine flippase activity	ISO Inferred from Sequence Orthology more info
enables phospholipid transporter activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in lipid transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within phospholipid transfer to membrane	ISO Inferred from Sequence Orthology more info
involved_in phospholipid translocation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within photoreceptor cell maintenance	ISO Inferred from Sequence Orthology more info
involved_in retinal metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within visual perception	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasmic vesicle	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
is_active_in intracellular membrane-bounded organelle	IBA Inferred from Biological aspect of Ancestor more info
located_in photoreceptor outer segment	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: retinal-specific phospholipid-transporting ATPase ABCA4

Names: ATP-binding cassette, sub-family A (ABC1), member 4; ATP-binding cassette, subfamily A (ABC1), member 4; retinal-specific ATP-binding cassette transporter

NP_001101191.1

EC 7.6.2.1

XP_063138015.1

EC 7.6.2.1

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_001107721.1 → NP_001101191.1 retinal-specific phospholipid-transporting ATPase ABCA4

See identical proteins and their annotated locations for NP_001101191.1

Status: PROVISIONAL

Source sequence(s)

CH473952

UniProtKB/TrEMBL

A6HVF7, A6HVF8

Conserved Domains (2) summary

TIGR01257
Location:1 → 2249

rim_protein; retinal-specific rim ABC transporter

cd03263
Location:1915 → 2135

ABC_subfamily_A; ATP-binding cassette domain of the lipid transporters, subfamily A