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Gene

FHL1

four and a half LIM domains 1

Summary

Cytogenetic location
Xq26.3
Coordinates
Chromosome X: 136,197,047–136,211,354 (GRCh38)
Exons
6 exons across 14.3 kb
Protein
296 amino acids
Also known as
SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
MANE Select transcript
ENST00000370683.6NM_001159699.2
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 report relevant to this gene

  • Dilated Cardiomyopathy

    • Enlargement and weakening of the left ventricle not explained by coronary artery or valve disease; inherited forms involve TTN, LMNA, RBM20, FLNC, BAG3, DSP, MYH7, TNNT2, DES, PLN and many other genes, and include Barth syndrome and the Emery-Dreifuss muscular dystrophies.

      • 2 GenCC submitters rate it definitive or strong
      What knowing changes

      Knowing a genetic cause supports earlier heart monitoring and family screening, and for genes with a high arrhythmia risk such as LMNA, FLNC and RBM20 it informs decisions about rhythm monitoring and implantable defibrillators.

How FHL1 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome X, with a bracket where FHL1 sits. FHL1 and 19 genes near it on chromosome X, from 135,704,201 to 136,704,200.Chromosome XXq26.3p22.33p22.32p22.31p22.2p22.13p22.12p22.11p21.3p21.2p21.1p11.4p11.3p11.23p11.22p11.21p11.1q11.1q11.2q12q13.1q13.2q13.3q21.1q21.2q21.31q21.32q21.33q22.1q22.2q22.3q23q24q25q26.1q26.2q26.3q27.1q27.2q27.3q28135.8 Mb136 Mb136.2 Mb136.4 Mb136.6 MbCT45A1: 135,708,083–135,723,539, forward strandCT45A1CT45A3: 135,759,846–135,768,191, reverse strandCT45A3CT45A5: 135,775,852–135,785,503, reverse strandCT45A5CT45A6: 135,794,685–135,802,787, reverse strandCT45A6CT45A2: 135,811,668–135,820,012, reverse strandCT45A2CT45A7: 135,829,229–135,837,280, reverse strandCT45A7CT45A8: 135,846,476–135,854,586, reverse strandCT45A8CT45A9: 135,863,418–135,871,875, reverse strandCT45A9CT45A10: 135,879,471–135,893,584, reverse strandCT45A10SAGE1: 135,890,182–135,913,062, forward strandSAGE1MMGT1: 135,960,588–135,974,068, reverse strandMMGT1SLC9A6: 135,973,841–136,047,269, forward strandSLC9A6FHL1: 136,197,047–136,211,354, forward strandFHL1MAP7D3: 136,213,220–136,256,482, reverse strandMAP7D3ADGRG4: 136,300,963–136,416,890, forward strandADGRG4BRS3: 136,487,947–136,493,784, forward strandBRS3HTATSF1: 136,496,928–136,513,533, forward strandHTATSF1VGLL1: 136,532,135–136,556,807, forward strandVGLL1CD40LG: 136,648,139–136,660,390, forward strandCD40LGARHGEF6: 136,665,547–136,781,688, reverse strandARHGEF6Diagram of FHL1: 6 exons on the forward strand of chromosome XExon 2: 5 known disease-causing sitesExon 3: 11 known disease-causing sitesExon 4: 17 known disease-causing sitesExon 5: 17 known disease-causing sitesExon 6: 18 known disease-causing sitesExon 1: 136,197,047–136,197,134, 88 basesExon 2: 136,206,407–136,206,588, 182 basesExon 3: 136,207,016–136,207,190, 175 basesExon 4: 136,207,792–136,207,961, 170 basesExon 5: 136,208,455–136,208,641, 187 basesExon 6: 136,209,871–136,211,354, 1,484 bases1234565′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 2.3 kb of the gene's 14.3 kb; 891 of those bases code for the protein.

How a genome test reads FHL1

76

positions in FHL1 where ClinVar classes a change as pathogenic or likely pathogenic

18 of them (24%) fall in regions short reads find hard.

  • Segmental duplications (18 sites)Copies of at least 1 kb sharing at least 90% identity with another part of the genome (paralogues, pseudogenes); reads may align to the wrong copy.

A whole genome covers all 14.3 kb of FHL1, introns included, not only the 2.3 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.
  • GenCC and ClinGen, released 2026-10-16: which conditions the gene is linked to, and how strongly.
  • The ACMG secondary findings list, SF v3.2.
  • 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.). FHL1 gene: four and a half LIM domains 1. Retrieved 17 October 2026, from https://dantelabs.com/genes/fhl1

Vancouver

Dante Labs. FHL1 gene: four and a half LIM domains 1 [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/fhl1

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