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

Gene ID: 361586, updated on 14-Nov-2024

Summary

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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, Nov 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

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See Trpm1 in Genome Data Viewer
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_086019.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134485125 Neighboring gene uncharacterized LOC120099837 Neighboring gene microRNA 211 Neighboring gene myotubularin related protein 10 Neighboring gene FANCD2 and FANCI associated nuclease 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. The characterization of a novel S100A1 binding site in the N-terminus of TRPM1. Jirku M, et al. Int J Biochem Cell Biol, 2016 Sep. PMID 27435061
  2. Genetic variants in transient receptor potential cation channel, subfamily M 1 (TRPM1) and their risk of albuminuria-related traits in Mexican Americans. Thameem F, et al. Clin Chim Acta, 2011 Nov 20. PMID 21439949, Free PMC Article
  3. TRPM1 is mutated in patients with autosomal-recessive complete congenital stationary night blindness. Audo I, et al. Am J Hum Genet, 2009 Nov. PMID 19896113, Free PMC Article
  4. Mutations in TRPM1 are a common cause of complete congenital stationary night blindness. van Genderen MM, et al. Am J Hum Genet, 2009 Nov. PMID 19896109, Free PMC Article
  5. Recessive mutations of the gene TRPM1 abrogate ON bipolar cell function and cause complete congenital stationary night blindness in humans. Li Z, et al. Am J Hum Genet, 2009 Nov. PMID 19878917, Free PMC Article

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. 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.
  2. 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

Homology

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)

  1. 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

  2. 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

  1. NC_086019.1 Reference GRCr8

    Range
    127130686..127247219
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

  2. 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
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q2WEA5.2 GenPept UniProtKB/Swiss-Prot:Q2WEA5

Gene LinkOut

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