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TRPM6 transient receptor potential cation channel subfamily M member 6 [ Homo sapiens (human) ]

Gene ID: 140803, updated on 27-Nov-2024

Summary

Official Symbol
TRPM6provided by HGNC
Official Full Name
transient receptor potential cation channel subfamily M member 6provided by HGNC
Primary source
HGNC:HGNC:17995
See related
Ensembl:ENSG00000119121 MIM:607009; AllianceGenome:HGNC:17995
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
HSH; HMGX; HOMG; CHAK2; HOMG1
Summary
This gene is predominantly expressed in the kidney and colon, and encodes a protein containing an ion channel domain and a protein kinase domain. It is crucial for magnesium homeostasis, and plays an essential role in epithelial magnesium transport and in the active magnesium absorption in the gut and kidney. Mutations in this gene are associated with hypomagnesemia with secondary hypocalcemia. Alternatively spliced transcript variants encoding different isoforms have been noted for this gene. [provided by RefSeq, Apr 2010]
Expression
Biased expression in colon (RPKM 8.1), small intestine (RPKM 3.5) and 5 other tissues See more
Orthologs
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Genomic context

See TRPM6 in Genome Data Viewer
Location:
9q21.13
Exon count:
41
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (74722495..74887921, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (86875552..87041025, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (77337411..77502837, complement)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr9:77093507-77093676 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:77111887-77112099 Neighboring gene Sharpr-MPRA regulatory region 6114 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:77114153-77114929 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:77114988-77115488 Neighboring gene RORB antisense RNA 1 Neighboring gene RAR related orphan receptor B Neighboring gene uncharacterized LOC105376088 Neighboring gene Sharpr-MPRA regulatory region 9792 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28467 Neighboring gene RN7SK pseudogene 47 Neighboring gene ribosomal protein SA pseudogene 75 Neighboring gene Sharpr-MPRA regulatory region 9148 Neighboring gene NANOG hESC enhancer GRCh37_chr9:77490497-77490998 Neighboring gene RNA, U6 small nuclear 445, pseudogene Neighboring gene RNY4 pseudogene 1 Neighboring gene Sharpr-MPRA regulatory region 214 Neighboring gene required for meiotic nuclear division 1 homolog (S. cerevisiae) pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28468 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19951 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19952 Neighboring gene chromosome 9 open reading frame 40

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Intestinal hypomagnesemia 1
MedGen: C1865974 OMIM: 602014 GeneReviews: Not available
Compare labs

EBI GWAS Catalog

Description
Genome-wide association studies of serum magnesium, potassium, and sodium concentrations identify six Loci influencing serum magnesium levels.
EBI GWAS Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables 3-phosphoinositide-dependent protein kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables AMP-activated protein kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA-dependent protein kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables Rho-dependent protein serine/threonine kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables calcium channel activity TAS
Traceable Author Statement
more info
 
enables calcium ion transmembrane transporter activity IDA
Inferred from Direct Assay
more info
PubMed 
enables eukaryotic translation initiation factor 2alpha kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H2AS1 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H2AS121 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H2AT120 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H2AXS139 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H2BS14 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H2BS36 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H3S10 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H3S28 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H3S57 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H3T11 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H3T3 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H3T45 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H3T6 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H4S1 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables magnesium ion transmembrane transporter activity IDA
Inferred from Direct Assay
more info
PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables monoatomic cation channel activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein serine kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables protein serine/threonine kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables ribosomal protein S6 kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables zinc ion transmembrane transporter activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in calcium ion transmembrane transport IDA
Inferred from Direct Assay
more info
PubMed 
involved_in calcium ion transmembrane transport TAS
Traceable Author Statement
more info
 
involved_in chromatin remodeling IEA
Inferred from Electronic Annotation
more info
 
involved_in magnesium ion transmembrane transport IDA
Inferred from Direct Assay
more info
PubMed 
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 protein tetramerization IEA
Inferred from Electronic Annotation
more info
 
involved_in response to toxic substance IDA
Inferred from Direct Assay
more info
PubMed 
involved_in zinc ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in apical plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in apical plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in brush border membrane IEA
Inferred from Electronic Annotation
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
transient receptor potential cation channel subfamily M member 6
Names
channel kinase 2
melastatin-related TRP cation channel 6
NP_001170781.1
NP_001170782.1
NP_060132.3

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.

Genomic

  1. NG_017036.1 RefSeqGene

    Range
    5174..170600
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001177310.2NP_001170781.1  transient receptor potential cation channel subfamily M member 6 isoform b

    See identical proteins and their annotated locations for NP_001170781.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (b) contains an alternate 5' terminal exon compared to variant a. This results in a shorter isoform (b) with a distinct N-terminus compared to isoform a.
    Source sequence(s)
    AF350881, AL354795, AY333283
    Consensus CDS
    CCDS55319.1
    UniProtKB/Swiss-Prot
    Q9BX84
    Related
    ENSP00000396672.2, ENST00000449912.6
    Conserved Domains (3) summary
    smart00811
    Location:17491967
    Alpha_kinase; Alpha-kinase family
    pfam00520
    Location:8481068
    Ion_trans; Ion transport protein
    pfam16519
    Location:11691220
    TRPM_tetra; Tetramerization domain of TRPM
  2. NM_001177311.2NP_001170782.1  transient receptor potential cation channel subfamily M member 6 isoform c

    See identical proteins and their annotated locations for NP_001170782.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (c) contains an alternate 5' terminal exon compared to variant a. This results in a shorter isoform (c) with a distinct N-terminus compared to isoform a.
    Source sequence(s)
    AF350881, AL354795, AY333284
    Consensus CDS
    CCDS55318.1
    UniProtKB/Swiss-Prot
    Q9BX84
    Related
    ENSP00000354962.3, ENST00000361255.7
    Conserved Domains (3) summary
    smart00811
    Location:17491967
    Alpha_kinase; Alpha-kinase family
    pfam00520
    Location:8481068
    Ion_trans; Ion transport protein
    pfam16519
    Location:11691220
    TRPM_tetra; Tetramerization domain of TRPM
  3. NM_017662.5NP_060132.3  transient receptor potential cation channel subfamily M member 6 isoform a

    See identical proteins and their annotated locations for NP_060132.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (a) encodes the longest isoform (a).
    Source sequence(s)
    AF350881, AL354795
    Consensus CDS
    CCDS6647.1
    UniProtKB/Swiss-Prot
    Q6VPR8, Q6VPR9, Q6VPS0, Q6VPS1, Q6VPS2, Q9BX84
    Related
    ENSP00000354006.1, ENST00000360774.6
    Conserved Domains (3) summary
    smart00811
    Location:17541972
    Alpha_kinase; Alpha-kinase family
    pfam00520
    Location:8531073
    Ion_trans; Ion transport protein
    pfam16519
    Location:11741225
    TRPM_tetra; Tetramerization domain of TRPM

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    74722495..74887921 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    86875552..87041025 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)