Free for academic non-profit institutions. Other users need a Commercial license

Aliases for LRRC39 Gene

Aliases for LRRC39 Gene

  • Leucine Rich Repeat Containing 39 2 3 5
  • Myosin-Interacting M-Band-Associated Stress-Responsive Protein 3 4
  • Myomasp 3 4
  • Leucine-Rich Repeat-Containing Protein 39 3
  • Densin Hlg 3

External Ids for LRRC39 Gene

Previous GeneCards Identifiers for LRRC39 Gene

  • GC01M100327
  • GC01M100614
  • GC01M098737

Summaries for LRRC39 Gene

GeneCards Summary for LRRC39 Gene

LRRC39 (Leucine Rich Repeat Containing 39) is a Protein Coding gene. An important paralog of this gene is LRRC2.

UniProtKB/Swiss-Prot for LRRC39 Gene

  • Component of the sarcomeric M-band which plays a role in myocyte response to biomechanical stress. May regulate expression of other M-band proteins via an SRF-dependent pathway. Important for normal contractile function in heart.

Gene Wiki entry for LRRC39 Gene

Additional gene information for LRRC39 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRRC39 Gene

Genomics for LRRC39 Gene

GeneHancer (GH) Regulatory Elements for LRRC39 Gene

Promoters and enhancers for LRRC39 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J100178 Promoter/Enhancer 1 EPDnew ENCODE 650.7 0.0 -27 0.2 MITF MEF2D L3MBTL2 ZNF354B LRRC39 TRMT13 RTCA HNRNPA1P68 SASS6 SLC30A7 MFSD14A SLC35A3 RPL23AP90
GH01J100036 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 16.6 +139.5 139546 4.1 SMAD1 ARNT MLX ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B ZNF766 MFSD14A SASS6 LRRC39 TRMT13 SLC30A7 BRI3P1 RTCA AGL ENSG00000241073 ENSG00000283761
GH01J100046 Promoter/Enhancer 1.8 EPDnew FANTOM5 Ensembl ENCODE 16 +129.8 129823 4.5 HDAC1 PKNOX1 FOXA2 ZNF133 TCF12 POLR3A ATF7 IKZF2 RUNX3 ZNF202 MFSD14A SASS6 LRRC39 HNRNPA1P68 TRMT13 RTCA FRRS1 ENSG00000241073 ENSG00000283761
GH01J099943 Enhancer 1.1 Ensembl ENCODE 14.1 +234.4 234383 1.6 PKNOX1 ATF1 ARNT NCOA2 TCF12 ATF7 NCOA1 ZNF592 MEF2D SMARCA4 LRRC39 SLC35A3 ENSG00000228084 FRRS1 GC01P099965 AGL
GH01J100028 Enhancer 0.8 FANTOM5 ENCODE 16.6 +149.4 149444 1.2 ATF1 ZNF362 NFATC1 ZBTB33 RUNX3 CREM GC01P100031 LRRC39 RTCA FRRS1 CDC14A MFSD14A RNU6-1318P SLC35A3 ENSG00000283761
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LRRC39 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LRRC39 gene promoter:
  • POU3F2
  • STAT3
  • GATA-1
  • C/EBPalpha
  • SREBP-1c
  • SREBP-1b
  • SREBP-1a
  • Cart-1
  • RORalpha2
  • Nkx2-2

Genomic Locations for LRRC39 Gene

Genomic Locations for LRRC39 Gene
29,826 bases
Minus strand
29,363 bases
Minus strand

Genomic View for LRRC39 Gene

Genes around LRRC39 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRRC39 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRRC39 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRRC39 Gene

Proteins for LRRC39 Gene

  • Protein details for LRRC39 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Leucine-rich repeat-containing protein 39
    Protein Accession:
    Secondary Accessions:
    • B3KUD2
    • D3DT56
    • Q5VVK7

    Protein attributes for LRRC39 Gene

    335 amino acids
    Molecular mass:
    38793 Da
    Quaternary structure:
    • Interacts with MYH7 (via C-terminus).

    Alternative splice isoforms for LRRC39 Gene


neXtProt entry for LRRC39 Gene

Post-translational modifications for LRRC39 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LRRC39 Gene

No data available for DME Specific Peptides for LRRC39 Gene

Domains & Families for LRRC39 Gene

Gene Families for LRRC39 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for LRRC39 Gene

Suggested Antigen Peptide Sequences for LRRC39 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LRRC39: view

No data available for UniProtKB/Swiss-Prot for LRRC39 Gene

Function for LRRC39 Gene

Molecular function for LRRC39 Gene

UniProtKB/Swiss-Prot Function:
Component of the sarcomeric M-band which plays a role in myocyte response to biomechanical stress. May regulate expression of other M-band proteins via an SRF-dependent pathway. Important for normal contractile function in heart.

Gene Ontology (GO) - Molecular Function for LRRC39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 20847312
genes like me logo Genes that share ontologies with LRRC39: view
genes like me logo Genes that share phenotypes with LRRC39: view

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LRRC39 Gene

Localization for LRRC39 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LRRC39 Gene

Cytoplasm, myofibril, sarcomere, M line.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LRRC39 gene
Compartment Confidence
cytosol 4
nucleus 3
mitochondrion 1

Gene Ontology (GO) - Cellular Components for LRRC39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0031430 M band IEA --
genes like me logo Genes that share ontologies with LRRC39: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for LRRC39 Gene

Pathways & Interactions for LRRC39 Gene

SuperPathways for LRRC39 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LRRC39 Gene


No data available for Pathways by source and SIGNOR curated interactions for LRRC39 Gene

Drugs & Compounds for LRRC39 Gene

No Compound Related Data Available

Transcripts for LRRC39 Gene

mRNA/cDNA for LRRC39 Gene

Unigene Clusters for LRRC39 Gene

Leucine rich repeat containing 39:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LRRC39 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b · 6c ^ 7
SP1: - -
SP2: -

Relevant External Links for LRRC39 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for LRRC39 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LRRC39 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LRRC39 Gene

This gene is overexpressed in Muscle - Skeletal (x17.4), Heart - Left Ventricle (x13.4), and Heart - Atrial Appendage (x7.2).

Protein differential expression in normal tissues from HIPED for LRRC39 Gene

This gene is overexpressed in Gallbladder (15.6), Plasma (14.7), Rectum (10.9), and Prostate (10.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LRRC39 Gene

Protein tissue co-expression partners for LRRC39 Gene

NURSA nuclear receptor signaling pathways regulating expression of LRRC39 Gene:


SOURCE GeneReport for Unigene cluster for LRRC39 Gene:


mRNA Expression by UniProt/SwissProt for LRRC39 Gene:

Tissue specificity: Highly expressed in skeletal muscle and heart. Not detected in other tissues tested.

Evidence on tissue expression from TISSUES for LRRC39 Gene

  • Muscle(4.4)
  • Heart(2.1)
genes like me logo Genes that share expression patterns with LRRC39: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for LRRC39 Gene

Orthologs for LRRC39 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LRRC39 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia LRRC39 34 33
  • 99.6 (n)
(Canis familiaris)
Mammalia LRRC39 34 33
  • 91.94 (n)
(Bos Taurus)
Mammalia LRRC39 34 33
  • 91.52 (n)
(Mus musculus)
Mammalia Lrrc39 16 34 33
  • 86.03 (n)
(Rattus norvegicus)
Mammalia Lrrc39 33
  • 84.93 (n)
(Monodelphis domestica)
Mammalia LRRC39 34
  • 82 (a)
(Ornithorhynchus anatinus)
Mammalia LRRC39 34
  • 80 (a)
(Gallus gallus)
Aves LRRC39 34 33
  • 69.85 (n)
(Anolis carolinensis)
Reptilia LRRC39 34
  • 68 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia lrrc39 33
  • 61.17 (n)
(Danio rerio)
Actinopterygii lrrc39 34 33
  • 63.43 (n)
Species where no ortholog for LRRC39 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for LRRC39 Gene

Gene Tree for LRRC39 (if available)
Gene Tree for LRRC39 (if available)
Evolutionary constrained regions (ECRs) for LRRC39: view image

Paralogs for LRRC39 Gene

(2) SIMAP similar genes for LRRC39 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with LRRC39: view

Variants for LRRC39 Gene

Sequence variations from dbSNP and Humsavar for LRRC39 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000010624 -- 100,156,749(-) G/A intron_variant
rs1000020668 -- 100,161,281(-) A/G intron_variant
rs1000091392 -- 100,150,171(-) A/G intron_variant
rs1000112530 -- 100,168,244(-) A/C intron_variant
rs1000248172 -- 100,164,866(-) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LRRC39 Gene

Variant ID Type Subtype PubMed ID
nsv2121 CNV insertion 18451855
nsv830804 CNV gain 17160897

Variation tolerance for LRRC39 Gene

Residual Variation Intolerance Score: 72.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.28; 62.68% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LRRC39 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRRC39 Gene

Disorders for LRRC39 Gene

Additional Disease Information for LRRC39

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for LRRC39 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LRRC39 Gene

Publications for LRRC39 Gene

  1. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 2 3 4 58
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  3. Myomasp/LRRC39, a heart- and muscle-specific protein, is a novel component of the sarcomeric M-band and is involved in stretch sensing. (PMID: 20847312) Will RD … Frey N (Circulation research 2010) 3 4 58
  4. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 58
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58

Products for LRRC39 Gene

Sources for LRRC39 Gene

Loading form....