Trpm1 transient receptor potential cation channel, subfamily M, member 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Trpm1provided by RGD
Full Name: transient receptor potential cation channel, subfamily M, member 1provided by RGD
Primary source: RGD:1597140
See related: EnsemblRapid:ENSRNOG00000015829 AllianceGenome:RGD:1597140
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
Summary: Predicted to enable calcium channel activity. Predicted to be involved in G protein-coupled glutamate receptor signaling pathway; calcium ion import across plasma membrane; and visual perception. Predicted to act upstream of or within several processes, including cellular response to light stimulus; protein localization; and retinal rod cell development. Predicted to be located in endoplasmic reticulum and new growing cell tip. Predicted to be active in cell tip; dendrite; and plasma membrane. Human ortholog(s) of this gene implicated in congenital stationary night blindness and congenital stationary night blindness 1C. Orthologous to human TRPM1 (transient receptor potential cation channel subfamily M member 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Kidney (RPKM 13.6), Testes (RPKM 10.0) and 4 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q22

Exon count:: 28

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (127130686..127247219)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (117718896..117835434)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (124983391..125101759)

Chromosome 1 - NC_086019.1 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?

a molecular mechanism for the potential regulation of TRPM1 by S100A1
Title: The characterization of a novel S100A1 binding site in the N-terminus of TRPM1.
Polymerase chain reaction used to check the expression of all TRPM and TRPV channel members with specific primers.
Title: Distribution profiles of transient receptor potential melastatin-related and vanilloid-related channels in prostatic tissue in rat.

Submit: New GeneRIF Correction

General gene information

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Markers

Mlsn1 (e-PCR), detects polymorphism
- UniSTS:143876

BI279791 (e-PCR)
- UniSTS:245033

Trpm1 (e-PCR), detects polymorphism
- UniSTS:530849

Trpm1 (e-PCR), detects polymorphism
- UniSTS:466086

BF410273 (e-PCR)
- UniSTS:246753

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium channel activity	IBA Inferred from Biological aspect of Ancestor more info
enables calcium channel activity	ISO Inferred from Sequence Orthology more info
enables calcium channel activity	ISS Inferred from Sequence or Structural Similarity more info
enables monoatomic cation channel activity	ISO Inferred from Sequence Orthology more info
enables monoatomic cation transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables monoatomic cation transmembrane transporter activity	ISS Inferred from Sequence or Structural Similarity more info
enables monoatomic ion channel activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in G protein-coupled glutamate receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in G protein-coupled glutamate receptor signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in calcium ion import across plasma membrane	ISO Inferred from Sequence Orthology more info
involved_in calcium ion import across plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within cellular response to light stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to light stimulus	ISO Inferred from Sequence Orthology more info
involved_in metal ion transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in monoatomic cation transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in monoatomic cation transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in monoatomic cation transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in monoatomic cation transmembrane transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in monoatomic cation transport	IEA Inferred from Electronic Annotation more info
involved_in monoatomic ion transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within protein localization	ISO Inferred from Sequence Orthology more info
involved_in protein tetramerization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within retinal rod cell development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within signal transduction	ISO Inferred from Sequence Orthology more info
involved_in visual perception	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in axon	IEA Inferred from Electronic Annotation more info
is_active_in cell tip	ISO Inferred from Sequence Orthology more info
is_active_in dendrite	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISS Inferred from Sequence or Structural Similarity more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in new growing cell tip	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: transient receptor potential cation channel subfamily M member 1

Names: melastatin; melastatin-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_001037733.1 → NP_001032822.1 transient receptor potential cation channel subfamily M member 1 isoform 2

See identical proteins and their annotated locations for NP_001032822.1

Status: PROVISIONAL

Description

Transcript Variant: This variant (2) uses an alternate splice site in the coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.

Source sequence(s)

AJ867483

UniProtKB/Swiss-Prot

F1M9X0, Q2WEA4, Q2WEA5

Conserved Domains (3) summary

pfam00520
Location:899 → 1129

Ion_trans; Ion transport protein

pfam16519
Location:1228 → 1279

TRPM_tetra; Tetramerization domain of TRPM

cl19167
Location:273 → 342

Bac_export_2; FlhB HrpN YscU SpaS Family
NM_001037734.1 → NP_001032823.1 transient receptor potential cation channel subfamily M member 1 isoform 1

See identical proteins and their annotated locations for NP_001032823.1

Status: PROVISIONAL

Description

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

Source sequence(s)

AJ867482

UniProtKB/Swiss-Prot

F1M9X0, Q2WEA4, Q2WEA5

Related

ENSRNOP00000021262.7, ENSRNOT00000021262.8

Conserved Domains (3) summary

pfam00520
Location:899 → 1135

Ion_trans; Ion transport protein

pfam16519
Location:1234 → 1285

TRPM_tetra; Tetramerization domain of TRPM

cl19167
Location:273 → 342

Bac_export_2; FlhB HrpN YscU SpaS Family

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

127130686..127247219

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063266876.1 → XP_063122946.1 transient receptor potential cation channel subfamily M member 1 isoform X1

UniProtKB/Swiss-Prot

F1M9X0, Q2WEA4, Q2WEA5
XM_039082296.1 → XP_038938224.1 transient receptor potential cation channel subfamily M member 1 isoform X2

Conserved Domains (2) summary

TIGR00870
Location:45 → 443

trp; transient-receptor-potential calcium channel protein

pfam16519
Location:512 → 565

TRPM_tetra; Tetramerisation domain of TRPM