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Tpcn1 two pore segment channel 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 246215, updated on 30-Sep-2021

Summary

Official Symbol
Tpcn1provided by RGD
Official Full Name
two pore segment channel 1provided by RGD
Primary source
RGD:708494
See related
EnsemblRapid:ENSRNOG00000059344
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
two-pore voltage-gated sodium and calcium channel [RGD, Feb 2006]
Expression
Biased expression in Kidney (RPKM 363.8), Muscle (RPKM 181.2) and 9 other tissues See more
Orthologs
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Genomic context

See Tpcn1 in Genome Data Viewer
Location:
12q16
Exon count:
30
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (35972813..36029632)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (41507784..41566847)

Chromosome 12 - NC_051347.1Genomic Context describing neighboring genes Neighboring gene RBPJ interacting and tubulin associated 1 Neighboring gene IQ motif containing D Neighboring gene uncharacterized LOC120095848 Neighboring gene solute carrier family 8 member B1 Neighboring gene phospholipase B domain containing 2

Genomic regions, transcripts, and products

Expression

  • 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

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables NAADP-sensitive calcium-release channel activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables NAADP-sensitive calcium-release channel activity IEA
Inferred from Electronic Annotation
more info
 
NOT enables NAADP-sensitive calcium-release channel activity ISO
Inferred from Sequence Orthology
more info
 
enables NAADP-sensitive calcium-release channel activity ISO
Inferred from Sequence Orthology
more info
 
NOT enables NAADP-sensitive calcium-release channel activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables NAADP-sensitive calcium-release channel activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables identical protein binding IEA
Inferred from Electronic Annotation
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables intracellular phosphatidylinositol-3,5-bisphosphate-sensitive cation channel activity IEA
Inferred from Electronic Annotation
more info
 
enables intracellular phosphatidylinositol-3,5-bisphosphate-sensitive cation channel activity ISO
Inferred from Sequence Orthology
more info
 
enables intracellular phosphatidylinositol-3,5-bisphosphate-sensitive cation channel activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables ligand-gated sodium channel activity IEA
Inferred from Electronic Annotation
more info
 
enables ligand-gated sodium channel activity ISO
Inferred from Sequence Orthology
more info
 
enables ligand-gated sodium channel activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables molecular_function ND
No biological Data available
more info
 
enables phosphatidylinositol-3,5-bisphosphate binding ISO
Inferred from Sequence Orthology
more info
 
enables protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
 
enables syntaxin binding ISO
Inferred from Sequence Orthology
more info
 
enables voltage-gated calcium channel activity IEA
Inferred from Electronic Annotation
more info
 
enables voltage-gated sodium channel activity IEA
Inferred from Electronic Annotation
more info
 
enables voltage-gated sodium channel activity ISO
Inferred from Sequence Orthology
more info
 
enables voltage-gated sodium channel activity ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
 
located_in early endosome membrane ISO
Inferred from Sequence Orthology
more info
 
located_in early endosome membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in endolysosome IEA
Inferred from Electronic Annotation
more info
 
located_in endolysosome ISO
Inferred from Sequence Orthology
more info
 
located_in endolysosome ISS
Inferred from Sequence or Structural Similarity
more info
 
is_active_in endosome membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in endosome membrane IEA
Inferred from Electronic Annotation
more info
 
located_in endosome membrane ISO
Inferred from Sequence Orthology
more info
 
located_in endosome membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
located_in integral component of membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in lysosomal membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in lysosomal membrane IEA
Inferred from Electronic Annotation
more info
 
located_in lysosomal membrane ISO
Inferred from Sequence Orthology
more info
 
located_in lysosomal membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in recycling endosome membrane ISO
Inferred from Sequence Orthology
more info
 
located_in recycling endosome membrane ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
two pore calcium channel protein 1
Names
two pore channel 1
voltage-dependent calcium channel protein TPC1
voltage-gated Ca channel

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_139332.3NP_647548.2  two pore calcium channel protein 1

    Status: VALIDATED

    Source sequence(s)
    AB018253, BC062072, CA339864, CK473123, JACYVU010000228
    UniProtKB/Swiss-Prot
    Q9WTN5
    Related
    ENSRNOP00000072420.2, ENSRNOT00000083890.2
    Conserved Domains (1) summary
    pfam00520
    Location:441692
    Ion_trans; Ion transport protein

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

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

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051347.1 Reference mRatBN7.2 Primary Assembly

    Range
    35972813..36029632
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039089065.1XP_038944993.1  two pore calcium channel protein 1 isoform X2

    Conserved Domains (1) summary
    pfam00520
    Location:434685
    Ion_trans; Ion transport protein
  2. XM_039089067.1XP_038944995.1  two pore calcium channel protein 1 isoform X4

    Conserved Domains (1) summary
    pfam00520
    Location:137331
    Ion_trans; Ion transport protein
  3. XM_039089064.1XP_038944992.1  two pore calcium channel protein 1 isoform X1

    Conserved Domains (1) summary
    pfam00520
    Location:441692
    Ion_trans; Ion transport protein
  4. XM_039089066.1XP_038944994.1  two pore calcium channel protein 1 isoform X3

    Conserved Domains (1) summary
    pfam00520
    Location:430681
    Ion_trans; Ion transport protein
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