Tmem38a transmembrane protein 38A [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Tmem38aprovided by MGI
Official Full Name: transmembrane protein 38Aprovided by MGI
Primary source: MGI:MGI:1921416
See related: Ensembl:ENSMUSG00000031791 AllianceGenome:MGI:1921416
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: mg33a; SPR-27; TRIC-A; 1110001E17Rik
Summary: Enables identical protein binding activity and potassium channel activity. Acts upstream of or within several processes, including cellular response to caffeine; inorganic cation transmembrane transport; and regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion. Located in nuclear membrane and sarcoplasmic reticulum. Is expressed in head mesenchyme; tongue; and vertebral axis musculature. Orthologous to human TMEM38A (transmembrane protein 38A). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in heart adult (RPKM 193.3), mammary gland adult (RPKM 71.7) and 9 other tissues See more
Orthologs: human all
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Genomic context

Location:: 8 B3.3; 8 35.08 cM

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	8	NC_000074.7 (73325033..73341128)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	8	NC_000074.6 (72571189..72587284)

Chromosome 8 - NC_000074.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Decreased cardiac pacemaking and attenuated beta-adrenergic response in TRIC-A knockout mice.
Title: Decreased cardiac pacemaking and attenuated β-adrenergic response in TRIC-A knockout mice.
The role of TRIC-A and TRIC-B channels in skeletal muscle sarcoplasmic reticulum channels is reported.
Title: Enhanced activity of multiple TRIC-B channels: an endoplasmic reticulum/sarcoplasmic reticulum mechanism to boost counterion currents.
Data suggest a function for TRIC-A protein (TRIC-A) as an accessory protein that interacts with ryanodine receptor calcium release channel (RyR2) to modulate intracellular Ca2+ signaling.
Title: TRIC-A Channel Maintains Store Calcium Handling by Interacting With Type 2 Ryanodine Receptor in Cardiac Muscle.
Three muscle-specific nuclear membrane proteins, NET39, Tmem38A, and WFS1, direct specific myogenic genes to the nuclear periphery to facilitate their repression during myogenesis.
Title: Tissue-Specific Gene Repositioning by Muscle Nuclear Membrane Proteins Enhances Repression of Critical Developmental Genes during Myogenesis.
TRIC-A and TRIC-B seem to have differential functions in Ca(2+) signaling in excitable and nonexcitable cells.
Title: Trimeric intracellular cation channels and sarcoplasmic/endoplasmic reticulum calcium homeostasis.
TRIC-A channel density in VSMCs is responsible for controlling basal blood pressure at the whole-animal level.
Title: Facilitated hyperpolarization signaling in vascular smooth muscle-overexpressing TRIC-A channels.
TRIC-A channels contribute to maintaining blood pressure, while TRIC-A SNPs could provide biomarkers for constitutional diagnosis and personalized medical treatment of essential hypertension.
Title: TRIC-A channels in vascular smooth muscle contribute to blood pressure maintenance.
Absence of TRIC-A leads to instability of Ca(2+) movement across the sarcoplasmic reticulum membrane.
Title: Ca2+ overload and sarcoplasmic reticulum instability in tric-a null skeletal muscle.
TRIC channels are likely to act as counter-ion channels that function in synchronization with Ca2+ release from intracellular stores
Title: TRIC channels are essential for Ca2+ handling in intracellular stores.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1)
Targeted (1) 1 citation

General gene information

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Markers

AI413399 (e-PCR)
- UniSTS:159776

NoName (e-PCR)
- UniSTS:235927

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables calcium-activated potassium channel activity	TAS Traceable Author Statement more info	PubMed
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables potassium channel activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within cellular response to caffeine	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within endoplasmic reticulum organization	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within inorganic cation transmembrane transport	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within monoatomic ion transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within monoatomic ion transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within potassium ion transmembrane transport	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within potassium ion transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within release of sequestered calcium ion into cytosol by sarcoplasmic reticulum	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in nuclear membrane	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in sarcoplasmic reticulum	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: trimeric intracellular cation channel type A

Names: 27 kDa sarcoplasmic reticulum protein; mitsugumin-33A

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_001357278.1 → NP_001344207.1 trimeric intracellular cation channel type A isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks two alternate in-frame exons compared to variant 1. The encoded isoform (2) is shorter than isoform 1.

Source sequence(s)

AC172623, AC182435

Conserved Domains (1) summary

pfam05197
Location:43 → 134

TRIC; TRIC channel
NM_001357279.1 → NP_001344208.1 trimeric intracellular cation channel type A isoform 3

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks an alternate exon, which results in a frameshift, compared to variant 1. The encoded isoform (3) has a distinct, shorter C-terminus compared to variant 1.

Source sequence(s)

AC172623, AC182435

Conserved Domains (1) summary

pfam05197
Location:43 → 184

TRIC; TRIC channel
NM_001357280.1 → NP_001344209.1 trimeric intracellular cation channel type A isoform 4

Status: VALIDATED

Description

Transcript Variant: This variant (5) uses an alternate splice site and lacks an alternate exon compared to variant 1. The encoded isoform (4) has a shorter, distinct C-terminus than isoform 1

Source sequence(s)

AC172623, AC182435

Consensus CDS

CCDS90418.1

UniProtKB/TrEMBL

A0A1D5RLJ0

Related

ENSMUSP00000148388.2, ENSMUST00000212763.2

Conserved Domains (1) summary

pfam05197
Location:43 → 155

TRIC; TRIC channel
NM_001357284.1 → NP_001344213.1 trimeric intracellular cation channel type A isoform 5

Status: VALIDATED

Description

Transcript Variant: This variant (6) lacks an internal exon compared to variant 1. This variant initiates at an alternate start codon, and the encoded isoform (5) contains a distinct N-terminus and is shorter than isoform 1.

Source sequence(s)

AC172623, AC182435

Conserved Domains (1) summary

pfam05197
Location:56 → 125

TRIC; TRIC channel
NM_144534.2 → NP_653117.1 trimeric intracellular cation channel type A isoform 1

See identical proteins and their annotated locations for NP_653117.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

AC182435, AK165818, BC014728, BU707844, EF988666

Consensus CDS

CCDS22417.1

UniProtKB/Swiss-Prot

A5A6S4, A7LBB7, Q3TMP8, Q3TZB9, Q91WL2

Related

ENSMUSP00000034244.8, ENSMUST00000034244.9

Conserved Domains (1) summary

pfam05197
Location:43 → 225

TRIC; TRIC channel

RNA

NR_151663.1 RNA Sequence

Status: VALIDATED

Description

Transcript Variant: This variant (4) lacks three internal exons compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region found in variant 1.

Source sequence(s)

AC172623, AC182435

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000074.7 Reference GRCm39 C57BL/6J

Range

73325033..73341128

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017312988.2 → XP_017168477.1 trimeric intracellular cation channel type A isoform X2

Conserved Domains (1) summary

pfam05197
Location:43 → 156

TRIC; TRIC channel
XM_036154325.1 → XP_036010218.1 trimeric intracellular cation channel type A isoform X1

Conserved Domains (1) summary

pfam05197
Location:1 → 168

TRIC; TRIC channel