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Gene

LDB3

LIM domain binding 3

Summary

Cytogenetic location
10q23.2
Coordinates
Chromosome 10: 86,668,511–86,736,072 (GRCh38)
Exons
14 exons across 67.6 kb
Protein
727 amino acids
Inheritance
Autosomal dominant
Also known as
PDLIM6, KIAA0613, ZASP
Previous symbols
CMD1C
MANE Select transcript
ENST00000361373.9NM_007078.3
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

  • 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.

      • ClinGen rates the link strong
      • 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.

  • Distal Myopathies

    • Distal myopathy

      A group of inherited muscle disorders in which weakness starts in the hands, forearms, lower legs or feet, caused by genes such as TTN, DYSF, FLNC, MYH7, ADSS1, SMPX and MATR3.

      • 2 GenCC submitters rate it definitive or strong

  • Left Ventricular Noncompaction

    • A heart muscle condition with a thick, spongy inner layer of the left ventricle, linked to sarcomere genes such as MYH7, ACTC1, TNNT2, TPM1 and MYBPC3, and to LDB3, PRDM16 and MIB1.

      • 1 GenCC submitter rates it definitive or strong
      What knowing changes

      Knowing about it supports heart imaging and rhythm monitoring and screening of relatives.

  • Myofibrillar Myopathies

    • Myofibrillar myopathy

      A group of muscle disorders in which the contractile structure of muscle fibers breaks down, caused by genes such as DES, CRYAB, MYOT, LDB3, FLNC and BAG3.

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

      Because the heart is often involved, regular heart checks (such as ECG and echocardiography) are recommended even without symptoms.

Broader groupings

  • Hypertrophic Cardiomyopathy

    • Autosomal dominant

      One of 62 genes linked to it

      A condition in which the myocardium is hypertrophied without an obvious cause. The hypertrophy is generally asymmetric and may be associated with obstruction of the ventricular outflow tract.

      • 1 GenCC submitter rates it definitive or strong
      What knowing changes

      Beta-blockers, non-dihydropyridine calcium channel blockers, activity restriction, genetic counseling

Inheritance

Autosomal dominant
One changed copy, from either parent, is enough. A parent who has one passes it on to each child with a one-in-two chance.

How LDB3 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome 10, with a bracket where LDB3 sits. LDB3 and 11 genes near it on chromosome 10, from 86,202,292 to 87,202,291.Chromosome 1010q23.2p15.3p15.2p15.1p14p13p12.33p12.32p12.31p12.2p12.1p11.23p11.22p11.21p11.1q11.1q11.21q11.22q11.23q21.1q21.2q21.3q22.1q22.2q22.3q23.1q23.2q23.31q23.32q23.33q24.1q24.2q24.31q24.32q24.33q25.1q25.2q25.3q26.11q26.12q26.13q26.2q26.386.4 Mb86.6 Mb86.8 Mb87 Mb87.2 MbGRID1: 85,599,552–86,366,809, reverse strandGRID1WAPL: 86,435,256–86,521,843, reverse strandWAPL: 86,654,518–86,700,020, forward strandOPN4: 86,654,518–86,666,460, forward strandOPN4LDB3: 86,668,511–86,736,072, forward strandLDB3BMPR1A: 86,755,751–86,932,825, forward strandBMPR1AMMRN2: 86,935,540–86,969,481, reverse strandMMRN2SNCG: 86,955,753–86,963,264, forward strandSNCGADIRF: 86,968,432–87,007,922, forward strandADIRFFAM25A: 87,020,238–87,060,609, forward strandFAM25AGLUD1: 87,050,202–87,095,405, reverse strandGLUD1SHLD2: 87,094,006–87,191,478, forward strandSHLD2Diagram of LDB3: 14 exons on the forward strand of chromosome 10Exon 2: 2 known disease-causing sitesExon 3: 3 known disease-causing sitesExon 4: 2 known disease-causing sitesExon 5: 5 known disease-causing sitesExon 6: 4 known disease-causing sitesExon 8: 2 known disease-causing sitesExon 9: 2 known disease-causing sitesExon 10: 11 known disease-causing sitesExon 11: 2 known disease-causing sitesExon 12: 2 known disease-causing sitesExon 1: 86,668,511–86,668,570, 60 basesExon 2: 86,668,669–86,668,784, 116 basesExon 3: 86,679,367–86,679,518, 152 basesExon 4: 86,680,082–86,680,157, 76 basesExon 5: 86,681,436–86,681,803, 368 basesExon 6: 86,691,896–86,692,065, 170 basesExon 7: 86,692,535–86,692,571, 37 basesExon 8: 86,706,531–86,706,719, 189 basesExon 9: 86,709,905–86,710,050, 146 basesExon 10: 86,716,327–86,716,771, 445 basesExon 11: 86,717,964–86,718,144, 181 basesExon 12: 86,718,727–86,718,847, 121 basesExon 13: 86,726,137–86,726,252, 116 basesExon 14: 86,732,887–86,736,072, 3,186 bases1510145′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 5.4 kb of the gene's 67.6 kb; 2,184 of those bases code for the protein.

How a genome test reads LDB3

46

positions in LDB3 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 67.6 kb of LDB3, introns included, not only the 5.4 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.). LDB3 gene: LIM domain binding 3. Retrieved 16 October 2026, from https://dantelabs.com/genes/ldb3

Vancouver

Dante Labs. LDB3 gene: LIM domain binding 3 [Internet]. [cited 16 October 2026]. Available from: https://dantelabs.com/genes/ldb3

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