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Gene

LIM2

lens intrinsic membrane protein 2

Summary

Cytogenetic location
19q13.41
Coordinates
Chromosome 19: 51,379,909–51,387,974 (GRCh38)
Exons
5 exons across 8.1 kb
Protein
173 amino acids
Also known as
MP19, MP17
MANE Select transcript
ENST00000596399.2NM_001161748.2
Locus type
gene with protein product

Reference genomeGRCh38

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

Curated report relevant to this gene

  • Hereditary Congenital & Juvenile Cataract

    • Early-Onset Non-Syndromic Cataract

      Cataract that appears at birth or early in life without other features, caused by changes in lens genes such as the crystallins (CRYAA, CRYBB2, CRYGD and others), GJA3, GJA8 and MIP.

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

      Early detection and surgery in children help prevent permanent vision loss from amblyopia, and family members can be offered eye checks.

How LIM2 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome 19, with a bracket where LIM2 sits. LIM2 and 38 genes near it on chromosome 19, from 50,883,942 to 51,883,941.Chromosome 1919q13.41p13.3p13.2p13.13p13.12p13.11p12p11q11q12q13.11q13.12q13.13q13.2q13.31q13.32q13.33q13.41q13.42q13.4351 Mb51.2 Mb51.4 Mb51.6 Mb51.8 MbKLK4: 50,906,351–50,911,395, reverse strandKLK4KLK5: 50,943,249–50,953,314, reverse strandKLK5KLK6: 50,958,631–50,969,673, reverse strandKLK6KLK7: 50,976,468–50,984,099, reverse strandKLK8: 50,996,007–51,002,711, reverse strand: 50,996,018–51,009,581, reverse strandKLK9: 51,002,508–51,009,634, reverse strandKLK9KLK10: 51,012,739–51,021,048, reverse strandKLK10KLK11: 51,022,216–51,028,060, reverse strandKLK11KLK12: 51,029,092–51,035,230, reverse strandKLK12KLK13: 51,055,625–51,065,801, reverse strandKLK13KLK14: 51,077,317–51,086,530, reverse strandKLK14CTU1: 51,095,343–51,108,426, reverse strandCTU1SIGLEC9: 51,124,871–51,141,053, forward strandSIGLEC9SIGLEC7: 51,142,288–51,153,702, forward strandSIGLEC7CD33: 51,217,033–51,243,860, forward strandCD33SIGLECL1: 51,246,348–51,269,330, forward strandSIGLECL1IGLON5: 51,311,639–51,330,891, forward strandVSIG10L: 51,331,536–51,342,310, reverse strandETFB: 51,345,161–51,366,449, reverse strand: 51,350,373–51,368,099, reverse strandCLDND2: 51,367,098–51,369,003, reverse strandCLDND2NKG7: 51,371,606–51,375,628, reverse strandNKG7LIM2: 51,379,909–51,387,974, reverse strandLIM2C19orf84: 51,388,289–51,390,610, reverse strandC19orf84SIGLEC10: 51,410,020–51,417,858, reverse strandSIGLEC8: 51,450,847–51,458,474, reverse strandSIGLEC8CEACAM18: 51,478,539–51,491,301, forward strandCEACAM18SIGLEC12: 51,491,227–51,501,800, reverse strandSIGLEC12SIGLEC6: 51,516,902–51,531,856, reverse strandSIGLEC6ZNF175: 51,571,250–51,592,510, forward strandZNF175SIGLEC5: 51,610,948–51,630,401, reverse strandSIGLEC5SIGLEC14: 51,639,478–51,646,825, reverse strandSIGLEC14SPACA6: 51,688,346–51,712,387, forward strandSPACA6HAS1: 51,713,106–51,723,992, reverse strandHAS1FPR1: 51,742,725–51,804,115, reverse strandFPR1FPR2: 51,752,026–51,771,307, forward strandFPR2FPR3: 51,795,131–51,827,761, forward strandFPR3ZNF577: 51,804,816–51,890,950, reverse strandZNF577Diagram of LIM2: 5 exons on the reverse strand of chromosome 19Exon 4: 1 known disease-causing siteExon 5: 51,379,909–51,380,262, 354 basesExon 4: 51,380,505–51,380,639, 135 basesExon 3: 51,382,418–51,382,567, 150 basesExon 2: 51,387,269–51,387,449, 181 basesExon 1: 51,387,919–51,387,974, 56 bases543215′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 0.9 kb of the gene's 8.1 kb; 522 of those bases code for the protein.

How a genome test reads LIM2

1

position in LIM2 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 8.1 kb of LIM2, introns included, not only the 0.9 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.
  • 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.). LIM2 gene: lens intrinsic membrane protein 2. Retrieved 16 October 2026, from https://dantelabs.com/genes/lim2

Vancouver

Dante Labs. LIM2 gene: lens intrinsic membrane protein 2 [Internet]. [cited 16 October 2026]. Available from: https://dantelabs.com/genes/lim2

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