Abca12 ATP binding cassette subfamily A member 12 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Abca12provided by RGD
Official Full Name: ATP binding cassette subfamily A member 12provided by RGD
Primary source: RGD:1304586
See related: EnsemblRapid:ENSRNOG00000015248 AllianceGenome:RGD:1304586
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 ATPase-coupled transmembrane transporter activity; apolipoprotein A-I receptor binding activity; and lipid transporter activity. Predicted to be involved in several processes, including corneocyte desquamation; phospholipid efflux; and positive regulation of intracellular lipid transport. Predicted to act upstream of or within several processes, including establishment of skin barrier; positive regulation of cholesterol efflux; and positive regulation of protein localization to cell surface. Predicted to be located in bounding membrane of organelle; cytosol; and plasma membrane. Predicted to be active in intracellular membrane-bounded organelle. Human ortholog(s) of this gene implicated in autosomal recessive congenital ichthyosis 1; autosomal recessive congenital ichthyosis 4A; and autosomal recessive congenital ichthyosis 4B. Orthologous to human ABCA12 (ATP binding cassette subfamily A member 12). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Testes (RPKM 16.4), Lung (RPKM 7.8) and 2 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 9q33

Exon count:: 54

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (80272121..80445340, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (72822661..72995748, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (78521477..78693421, complement)

Chromosome 9 - NC_086027.1 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?

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

D9Mit11 (e-PCR), detects polymorphism
- UniSTS:239392

D9Got84 (e-PCR)
- UniSTS:114982

Abca12 (e-PCR), detects polymorphism
- UniSTS:546609

D9Rat95 (e-PCR)
- UniSTS:119206

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ABC-type transporter activity	IEA Inferred from Electronic Annotation more info
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	IEA Inferred from Electronic Annotation more info
enables ATPase-coupled transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables apolipoprotein A-I receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables apolipoprotein A-I receptor binding	ISO Inferred from Sequence Orthology more info
enables lipid transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables lipid transporter activity	ISO Inferred from Sequence Orthology more info
enables signaling receptor 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 ceramide metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within ceramide transport	ISO Inferred from Sequence Orthology more info
involved_in ceramide transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of cholesterol efflux	ISO Inferred from Sequence Orthology more info
involved_in corneocyte desquamation	ISO Inferred from Sequence Orthology more info
acts_upstream_of establishment of localization in cell	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment of skin barrier	ISO Inferred from Sequence Orthology more info
involved_in establishment of skin barrier	ISO Inferred from Sequence Orthology more info
involved_in intracellular protein transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within keratinization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within keratinocyte differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lipid homeostasis	ISO Inferred from Sequence Orthology more info
involved_in lipid transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in lipid transport	ISO Inferred from Sequence Orthology more info
NOT acts_upstream_of_or_within lung alveolus development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lung alveolus development	ISO Inferred from Sequence Orthology more info
involved_in phospholipid efflux	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of cholesterol efflux	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cholesterol efflux	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of intracellular lipid transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of protein localization to cell surface	ISO Inferred from Sequence Orthology more info
involved_in protein localization to plasma membrane	ISO Inferred from Sequence Orthology more info
involved_in regulated exocytosis	ISO Inferred from Sequence Orthology more info
involved_in regulation of insulin secretion involved in cellular response to glucose stimulus	ISO Inferred from Sequence Orthology more info
involved_in regulation of keratinocyte differentiation	ISO Inferred from Sequence Orthology more info
involved_in secretion by cell	ISO Inferred from Sequence Orthology more info
NOT involved_in skin morphogenesis	ISO Inferred from Sequence Orthology more info
NOT acts_upstream_of_or_within surfactant homeostasis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within surfactant homeostasis	ISO Inferred from Sequence Orthology more info
involved_in transmembrane transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in Golgi membrane	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in epidermal lamellar body	ISO Inferred from Sequence Orthology more info
located_in epidermal lamellar body membrane	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 plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: glucosylceramide transporter ABCA12

Names: ATP-binding cassette sub-family A member 12; ATP-binding cassette, sub-family A (ABC1), member 12; ATP-binding cassette, subfamily A (ABC1), member 12

NP_001414620.1

EC 7.6.2.1

XP_038940558.1

EC 7.6.2.1

XP_038940559.1

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_001427691.1 → NP_001414620.1 glucosylceramide transporter ABCA12

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/TrEMBL

D4A7J3

Related

ENSRNOP00000054481.5, ENSRNOT00000057672.7

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_086027.1 Reference GRCr8

Range

80272121..80445340 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039084631.2 → XP_038940559.1 glucosylceramide transporter ABCA12 isoform X2

UniProtKB/TrEMBL

A6KFG0

Conserved Domains (1) summary

TIGR01257
Location:1 → 1473

rim_protein; retinal-specific rim ABC transporter
XM_039084630.2 → XP_038940558.1 glucosylceramide transporter ABCA12 isoform X1

UniProtKB/TrEMBL

A6KFG0

Conserved Domains (1) summary

TIGR01257
Location:13 → 1493

rim_protein; retinal-specific rim ABC transporter