Tcirg1 T-cell immune regulator 1, ATPase H+ transporting V0 subunit A3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tcirg1provided by RGD
Official Full Name: T-cell immune regulator 1, ATPase H+ transporting V0 subunit A3provided by RGD
Primary source: RGD:735136
See related: EnsemblRapid:ENSRNOG00000017220 AllianceGenome:RGD:735136
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
Also known as: OC116; TIRC7
Summary: Predicted to enable ATPase binding activity. Predicted to be involved in vacuolar acidification. Predicted to act upstream of or within several processes, including T cell activation; odontogenesis; and regulation of pH. Predicted to be located in several cellular components, including apical plasma membrane; cytoplasmic vesicle; and lysosome. Predicted to be part of vacuolar proton-transporting V-type ATPase complex. Predicted to be active in plasma membrane. Human ortholog(s) of this gene implicated in autosomal recessive osteopetrosis 1. Orthologous to human TCIRG1 (T cell immune regulator 1, ATPase H+ transporting V0 subunit a3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Spleen (RPKM 103.0), Lung (RPKM 100.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q43

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (210556270..210568021, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (201127034..201138787, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (219126687..219139466, complement)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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 N termini of a-subunit isoforms are involved in signaling between vacuolar H+-ATPase (V-ATPase) and cytohesin-2
Title: The N termini of a-subunit isoforms are involved in signaling between vacuolar H+-ATPase (V-ATPase) and cytohesin-2.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATPase binding	IBA Inferred from Biological aspect of Ancestor more info
enables proton transmembrane transporter activity	NAS Non-traceable Author Statement more info	PubMed
enables proton-transporting ATPase activity, rotational mechanism	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within B cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within T cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within T cell homeostasis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within T-helper 1 cell activation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within autophagosome assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within autophagy	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within bone resorption	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to cytokine stimulus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within dentin mineralization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within enamel mineralization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment of cell polarity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment of vesicle localization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hematopoietic stem cell homeostasis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within homeostasis of number of cells	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within immunoglobulin mediated immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inflammatory response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within intracellular calcium ion homeostasis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within intracellular pH reduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within macroautophagy	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within memory T cell activation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within myeloid cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within odontogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within optic nerve development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within ossification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within osteoclast differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within osteoclast proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within pH reduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within phagosome acidification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein catabolic process in the vacuole	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization to organelle	ISO Inferred from Sequence Orthology more info
involved_in proton transmembrane transport	NAS Non-traceable Author Statement more info	PubMed
acts_upstream_of_or_within regulation of gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of insulin secretion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of osteoblast differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of proton transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to silver ion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retina development in camera-type eye	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within ruffle organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within tooth eruption	ISO Inferred from Sequence Orthology more info
involved_in vacuolar acidification	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
located_in late endosome	ISO Inferred from Sequence Orthology more info
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in phagocytic vesicle	ISO Inferred from Sequence Orthology more info
located_in phagocytic vesicle membrane	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
part_of proton-transporting V-type ATPase, V0 domain	IEA Inferred from Electronic Annotation more info
located_in secretory granule membrane	ISO Inferred from Sequence Orthology more info
part_of vacuolar proton-transporting V-type ATPase complex	IBA Inferred from Biological aspect of Ancestor more info
part_of vacuolar proton-transporting V-type ATPase, V0 domain	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: V-type proton ATPase 116 kDa subunit a 3

Names: ATPase, H+ transporting, lysosomal V0 protein a; T cell immune response cDNA7 protein; T-cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3; T-cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein a; T-cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 subunit A3; V-type proton ATPase 116 kDa subunit a; V-type proton ATPase 116 kDa subunit a3; osteoclastic proton pump; v-ATPase 116-kDa; v-H+ATPase subunit a3

NP_954520.3

EC 7.1.2.1

XP_006230790.1

EC 7.1.2.1

XP_008758319.1

EC 7.1.2.1

XP_038964108.1

EC 7.1.2.1

XP_038964118.1

EC 7.1.2.1

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_199089.3 → NP_954520.3 V-type proton ATPase 116 kDa subunit a 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000001

UniProtKB/TrEMBL

A6HYM9, Q2I6B0

Related

ENSRNOP00000023425.5, ENSRNOT00000023425.8

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_086019.1 Reference GRCr8

Range

210556270..210568021 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008760097.4 → XP_008758319.1 V-type proton ATPase 116 kDa subunit a 3 isoform X1

See identical proteins and their annotated locations for XP_008758319.1

UniProtKB/TrEMBL

A6HYM9, Q2I6B0

Related

ENSRNOP00000079519.2, ENSRNOT00000104991.2

Conserved Domains (2) summary

COG1269
Location:27 → 829

NtpI; Archaeal/vacuolar-type H+-ATPase subunit I/STV1 [Energy production and conversion]

pfam01496
Location:28 → 829

V_ATPase_I; V-type ATPase 116kDa subunit family
XM_006230728.4 → XP_006230790.1 V-type proton ATPase 116 kDa subunit a 3 isoform X2

UniProtKB/TrEMBL

Q2I6B0

Conserved Domains (1) summary

pfam01496
Location:31 → 690

V_ATPase_I; V-type ATPase 116kDa subunit family
XM_039108180.2 → XP_038964108.1 V-type proton ATPase 116 kDa subunit a 3 isoform X2

UniProtKB/TrEMBL

Q2I6B0

Conserved Domains (1) summary

pfam01496
Location:31 → 690

V_ATPase_I; V-type ATPase 116kDa subunit family
XM_039108190.2 → XP_038964118.1 V-type proton ATPase 116 kDa subunit a 3 isoform X3

Conserved Domains (1) summary

pfam01496
Location:27 → 559

V_ATPase_I; V-type ATPase 116kDa subunit family