Atp9a ATPase phospholipid transporting 9A (putative) [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Atp9aprovided by RGD
Official Full Name: ATPase phospholipid transporting 9A (putative)provided by RGD
Primary source: RGD:621421
See related: EnsemblRapid:ENSRNOG00000049484 AllianceGenome:RGD:621421
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 protease binding activity. Predicted to be involved in neuron projection morphogenesis and regulation of vesicle-mediated transport. Predicted to be located in several cellular components, including endosome; perinuclear region of cytoplasm; and trans-Golgi network membrane. Human ortholog(s) of this gene implicated in neurodevelopmental disorder with poor growth and behavioral abnormalities. Orthologous to human ATP9A (ATPase phospholipid transporting 9A (putative)). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Brain (RPKM 642.2), Muscle (RPKM 444.4) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q42

Exon count:: 32

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (177779203..177886431, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (157360354..157467628, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (165405588..165511104, complement)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

the predominant P4 ATPases in pure pancreatic beta cells and human and rat pancreatic islets were ATP8B1, ATP8B2, and ATP9A. ATP8B1 and CDC50A were highly concentrated in ISG
Title: Characterization of P4 ATPase Phospholipid Translocases (Flippases) in Human and Rat Pancreatic Beta Cells: THEIR GENE SILENCING INHIBITS INSULIN SECRETION.

Submit: New GeneRIF Correction

General gene information

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Markers

C78563 (e-PCR)
- UniSTS:207447

RH141846 (e-PCR)
- UniSTS:223838

UniSTS:234614 (e-PCR)
- UniSTS:234614

RH143096 (e-PCR)
- UniSTS:232343

Atp9a (e-PCR), detects polymorphism
- UniSTS:527266

RH124626 (e-PCR)
- UniSTS:161448

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation more info
enables magnesium ion binding	IEA Inferred from Electronic Annotation more info
enables protease binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in endocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in lipid translocation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of exosomal secretion	ISO Inferred from Sequence Orthology more info
involved_in neuron projection morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in phospholipid translocation	IBA Inferred from Biological aspect of Ancestor more info
involved_in phospholipid transport	IEA Inferred from Electronic Annotation more info
involved_in regulation of endocytic recycling	ISO Inferred from Sequence Orthology more info
involved_in regulation of retrograde transport, endosome to Golgi	ISO Inferred from Sequence Orthology more info
involved_in retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in early endosome	ISO Inferred from Sequence Orthology more info
located_in early endosome membrane	ISO Inferred from Sequence Orthology more info
is_active_in endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in late endosome	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in recycling endosome	ISO Inferred from Sequence Orthology more info
located_in recycling endosome membrane	ISO Inferred from Sequence Orthology more info
is_active_in trans-Golgi network	IBA Inferred from Biological aspect of Ancestor more info
located_in trans-Golgi network	ISO Inferred from Sequence Orthology more info
located_in trans-Golgi network membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: probable phospholipid-transporting ATPase IIA

Names: ATPase, class II, type 9A

NP_001413946.1

EC 7.6.2.1

NP_001413947.1

EC 7.6.2.1

NP_001413948.1

EC 7.6.2.1

XP_038962655.2

EC 7.6.2.1

XP_038962659.1

EC 7.6.2.1

XP_063140758.1

EC 7.6.2.1

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_001427017.1 → NP_001413946.1 probable phospholipid-transporting ATPase IIA isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A0A8I6ACQ2, A0A8I6GI47

Related

ENSRNOP00000091936.1, ENSRNOT00000114454.2
NM_001427018.1 → NP_001413947.1 probable phospholipid-transporting ATPase IIA isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A0A8I6A913, A0A8I6GI47

Related

ENSRNOP00000106333.1, ENSRNOT00000148985.1
NM_001427019.1 → NP_001413948.1 probable phospholipid-transporting ATPase IIA isoform 4

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A0A8I6GI47, M0R6E0

Related

ENSRNOP00000081936.1, ENSRNOT00000120273.2
NM_032064.1 → NP_114453.1 probable phospholipid-transporting ATPase IIA isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A0A8I6GI47

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_086021.1 Reference GRCr8

Range

177779203..177886431 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039106727.2 → XP_038962655.2 probable phospholipid-transporting ATPase IIA isoform X1

Related

ENSRNOP00000090350.1, ENSRNOT00000112529.2
XM_039106731.2 → XP_038962659.1 probable phospholipid-transporting ATPase IIA isoform X2

UniProtKB/TrEMBL

A0A8I6GI47, M0R6E0

Conserved Domains (2) summary

cd07541
Location:33 → 945

P-type_ATPase_APLT_Neo1-like; Aminophospholipid translocases (APLTs), similar to Saccharomyces cerevisiae Neo1p and human putative APLT, ATP9B

pfam13246
Location:442 → 549

Cation_ATPase; Cation transport ATPase (P-type)
XM_063284688.1 → XP_063140758.1 probable phospholipid-transporting ATPase IIA isoform X3

UniProtKB/TrEMBL

A0A8I6GI47, M0R6E0

Related

ENSRNOP00000064988.3, ENSRNOT00000071672.5