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Gene

SCNM1

sodium channel modifier 1

Summary

Cytogenetic location
1q21.3
Coordinates
Chromosome 1: 151,166,144–151,170,296 (GRCh38)
Exons
7 exons across 4.2 kb
Protein
230 amino acids
Also known as
MGC3180
MANE Select transcript
ENST00000368905.9NM_024041.4
Locus type
gene with protein product
  • Very high
  • Confident
  • Low
  • Very low

Reference genomeGRCh38

Positions on gene and variant pages follow this choice, in this browser.

Curated reports relevant to this gene

No Genome Test report reads SCNM1 yet. The test sequences your whole genome, so your data includes it all the same.

How SCNM1 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome 1, with a bracket where SCNM1 sits. SCNM1 and 32 genes near it on chromosome 1, from 150,668,220 to 151,668,219.Chromosome 11q21.3p36.33p36.32p36.31p36.23p36.22p36.21p36.13p36.12p36.11p35.3p35.2p35.1p34.3p34.2p34.1p33p32.3p32.2p32.1p31.3p31.2p31.1p22.3p22.2p22.1p21.3p21.2p21.1p13.3p13.2p13.1p12p11.2p11.1q11q12q21.1q21.2q21.3q22q23.1q23.2q23.3q24.1q24.2q24.3q25.1q25.2q25.3q31.1q31.2q31.3q32.1q32.2q32.3q41q42.11q42.12q42.13q42.2q42.3q43q44150.8 Mb151 Mb151.2 Mb151.4 Mb151.6 MbGOLPH3L: 150,638,727–150,697,222, reverse strandGOLPH3LHORMAD1: 150,698,059–150,720,895, reverse strandHORMAD1CTSS: 150,730,079–150,765,957, reverse strandCTSSCTSK: 150,794,880–150,809,577, reverse strandCTSKARNT: 150,808,617–150,876,771, reverse strandARNTCTXND2: 150,887,136–150,913,292, forward strandCTXND2SETDB1: 150,926,263–150,964,748, forward strandSETDB1CERS2: 150,959,099–150,977,396, reverse strandCERS2ANXA9: 150,981,321–150,996,077, forward strandANXA9MINDY1: 150,995,125–151,008,376, reverse strandPRUNE1: 151,008,408–151,035,714, forward strandBNIPL: 151,036,321–151,047,720, forward strandC1orf56: 151,047,746–151,051,986, forward strandC1orf56CDC42SE1: 151,050,242–151,070,325, reverse strandCDC42SE1MLLT11: 151,054,177–151,069,544, forward strandMLLT11GABPB2: 151,070,514–151,130,109, forward strandGABPB2SEMA6C: 151,131,685–151,147,813, reverse strandTIPE2: 151,156,621–151,160,255, forward strandTIPE2LYSMD1: 151,159,748–151,165,948, reverse strandLYSMD1SCNM1: 151,166,144–151,170,296, forward strandSCNM1TMOD4: 151,169,984–151,176,284, reverse strandTMOD4VPS72: 151,176,304–151,195,321, reverse strandPIP5K1A: 151,197,949–151,249,538, forward strandPSMD4: 151,254,709–151,279,502, forward strandPSMD4ZNF687: 151,281,502–151,292,180, forward strandZNF687PI4KB: 151,291,792–151,328,394, reverse strandPI4KBRFX5: 151,340,640–151,347,339, reverse strandRFX5SELENBP1: 151,364,157–151,372,716, reverse strandSELENBP1PSMB4: 151,399,556–151,401,941, forward strandPSMB4POGZ: 151,402,724–151,459,511, reverse strandPOGZCGN: 151,510,139–151,538,692, forward strandCGNTUFT1: 151,540,305–151,583,583, forward strandTUFT1SNX27: 151,611,985–151,699,091, forward strandSNX27Diagram of SCNM1: 7 exons on the forward strand of chromosome 1Exon 4: 1 known disease-causing siteExon 1: 151,166,144–151,166,203, 60 basesExon 2: 151,166,471–151,166,541, 71 basesExon 3: 151,166,934–151,167,022, 89 basesExon 4: 151,167,121–151,167,218, 98 basesExon 5: 151,167,326–151,167,414, 89 basesExon 6: 151,168,144–151,168,338, 195 basesExon 7: 151,168,986–151,170,296, 1,311 bases12345675′3′

Exons of the gene's MANE Select transcript (release v1.5), from NCBI and EMBL-EBI, on the GRCh38 reference genome.

Chromosome bands from UCSC's GRCh38 ideogram (2022-10-29).

Nearby genes from Ensembl release 116, on GRCh38.

Exons make up 1.9 kb of the gene's 4.2 kb; 693 of those bases code for the protein.

How a genome test reads SCNM1

1

position in SCNM1 where ClinVar classes a change as pathogenic or likely pathogenic

None of them falls in a region short reads find hard.

A whole genome covers all 4.2 kb of SCNM1, introns included, not only the 1.9 kb of exons.

Where this comes from

  • HGNC: the gene's symbol, name, other symbols and location.
  • MANE Select v1.5, from NCBI and EMBL-EBI: the transcript, its exons and coding sequence.
  • ClinVar and the GIAB stratifications: known disease-causing sites, and the regions short reads find hard.
  • The Human Phenotype Ontology, release 2026-09-01: the traits linked to the gene. Find out more at hpo.jax.org.
  • Data release 2026.10.16-c6eea6bf.

Cite this page

APA

Dante Labs. (n.d.). SCNM1 gene: sodium channel modifier 1. Retrieved 17 October 2026, from https://dantelabs.com/genes/scnm1

Vancouver

Dante Labs. SCNM1 gene: sodium channel modifier 1 [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/scnm1

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