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

Aliases for LRRC40 Gene

Aliases for LRRC40 Gene

  • Leucine Rich Repeat Containing 40 2 3 5
  • Leucine-Rich Repeat-Containing Protein 40 3
  • Testicular Tissue Protein Li 109 3
  • DJ677H15.1 3

External Ids for LRRC40 Gene

Previous GeneCards Identifiers for LRRC40 Gene

  • GC01M070323
  • GC01M070610
  • GC01M068721

Summaries for LRRC40 Gene

GeneCards Summary for LRRC40 Gene

LRRC40 (Leucine Rich Repeat Containing 40) is a Protein Coding gene. An important paralog of this gene is LRRD1.

Gene Wiki entry for LRRC40 Gene

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRRC40 Gene

Genomics for LRRC40 Gene

Regulatory Elements for LRRC40 Gene

Enhancers for LRRC40 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
- Elite enhancer/Elite enhancer-gene association

Enhancers around LRRC40 on UCSC Golden Path with GeneCards custom track

Promoters for LRRC40 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

Genomic Location for LRRC40 Gene

Chromosome:
1
Start:
70,144,802 bp from pter
End:
70,205,678 bp from pter
Size:
60,877 bases
Orientation:
Minus strand

Genomic View for LRRC40 Gene

Genes around LRRC40 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRRC40 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRRC40 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRRC40 Gene

Proteins for LRRC40 Gene

  • Protein details for LRRC40 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H9A6-LRC40_HUMAN
    Recommended name:
    Leucine-rich repeat-containing protein 40
    Protein Accession:
    Q9H9A6
    Secondary Accessions:
    • Q9BTR7
    • Q9NSK1
    • Q9NXC1

    Protein attributes for LRRC40 Gene

    Size:
    602 amino acids
    Molecular mass:
    68250 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA91094.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for LRRC40 Gene

Post-translational modifications for LRRC40 Gene

  • Ubiquitination at Lys 86 and Lys 93
  • Modification sites at PhosphoSitePlus

Other Protein References for LRRC40 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LRRC40 Gene

Domains & Families for LRRC40 Gene

Protein Domains for LRRC40 Gene

Suggested Antigen Peptide Sequences for LRRC40 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9H9A6

UniProtKB/Swiss-Prot:

LRC40_HUMAN :
  • Contains 20 LRR (leucine-rich) repeats.
Similarity:
  • Contains 20 LRR (leucine-rich) repeats.
genes like me logo Genes that share domains with LRRC40: view

No data available for Gene Families for LRRC40 Gene

Function for LRRC40 Gene

genes like me logo Genes that share phenotypes with LRRC40: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LRRC40 Gene

Localization for LRRC40 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LRRC40 Gene COMPARTMENTS Subcellular localization image for LRRC40 gene
Compartment Confidence
cytosol 3
nucleus 3

Gene Ontology (GO) - Cellular Components for LRRC40 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IDA 19946888
genes like me logo Genes that share ontologies with LRRC40: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for LRRC40 Gene

Pathways & Interactions for LRRC40 Gene

SuperPathways for LRRC40 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LRRC40 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LRRC40 Gene

Drugs & Compounds for LRRC40 Gene

No Compound Related Data Available

Transcripts for LRRC40 Gene

Unigene Clusters for LRRC40 Gene

Leucine rich repeat containing 40:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LRRC40 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b · 7c ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16
SP1: -
SP2: - -
SP3: - - -
SP4: - -

Relevant External Links for LRRC40 Gene

GeneLoc Exon Structure for
LRRC40
ECgene alternative splicing isoforms for
LRRC40

Expression for LRRC40 Gene

mRNA expression in normal human tissues for LRRC40 Gene

Protein differential expression in normal tissues from HIPED for LRRC40 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (8.8), Fetal Brain (8.7), and Brain (8.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for LRRC40 Gene



Protein tissue co-expression partners for LRRC40 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LRRC40 Gene:

LRRC40

SOURCE GeneReport for Unigene cluster for LRRC40 Gene:

Hs.147836
genes like me logo Genes that share expression patterns with LRRC40: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for LRRC40 Gene

Orthologs for LRRC40 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for LRRC40 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LRRC40 35
  • 100 (a)
OneToOne
LRRC40 34
  • 99.61 (n)
  • 99.5 (a)
platypus
(Ornithorhynchus anatinus)
Mammalia LRRC40 35
  • 79 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lrrc40 35
  • 83 (a)
OneToOne
Lrrc40 16
Lrrc40 34
  • 82.34 (n)
  • 83.06 (a)
oppossum
(Monodelphis domestica)
Mammalia LRRC40 35
  • 76 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LRRC40 35
  • 89 (a)
OneToOne
LRRC40 34
  • 89.23 (n)
  • 89.8 (a)
cow
(Bos Taurus)
Mammalia LRRC40 35
  • 91 (a)
OneToOne
LRRC40 34
  • 89.37 (n)
  • 91.69 (a)
rat
(Rattus norvegicus)
Mammalia Lrrc40 34
  • 81.44 (n)
  • 83.38 (a)
chicken
(Gallus gallus)
Aves LRRC40 35
  • 70 (a)
OneToOne
LRRC40 34
  • 69.71 (n)
  • 70.27 (a)
lizard
(Anolis carolinensis)
Reptilia LRRC40 35
  • 60 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lrrc40 34
  • 63.95 (n)
  • 63.06 (a)
zebrafish
(Danio rerio)
Actinopterygii lrrc40 35
  • 63 (a)
OneToOne
lrrc40 34
  • 61.17 (n)
  • 62.83 (a)
-- 34
fruit fly
(Drosophila melanogaster)
Insecta f-cup 35
  • 32 (a)
OneToOne
f-cup 34
  • 45.77 (n)
  • 39.23 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP006993 34
  • 45.4 (n)
  • 40.42 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT3G15410 34
  • 44.18 (n)
  • 38.6 (a)
rice
(Oryza sativa)
Liliopsida Os02g0826600 34
  • 44.97 (n)
  • 37.82 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU05545 34
  • 41.42 (n)
  • 34.89 (a)
Species where no ortholog for LRRC40 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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)
  • 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 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for LRRC40 Gene

ENSEMBL:
Gene Tree for LRRC40 (if available)
TreeFam:
Gene Tree for LRRC40 (if available)

Paralogs for LRRC40 Gene

(2) SIMAP similar genes for LRRC40 Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for LRRC40 Gene

genes like me logo Genes that share paralogs with LRRC40: view

Variants for LRRC40 Gene

Sequence variations from dbSNP and Humsavar for LRRC40 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs270495 - 70,189,267(-) GCCGC(A/C)GTGTG intron-variant, reference, missense, utr-variant-5-prime
rs3180401 - 70,151,147(-) AAACG(A/G)TCAAT reference, missense
rs156108 -- 70,195,969(+) ttcca(C/T)tgtca intron-variant
rs171995 -- 70,176,527(-) tgaga(G/T)ggatt intron-variant
rs427189 -- 70,192,112(+) aatgt(G/T)tttcc intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LRRC40 Gene

Variant ID Type Subtype PubMed ID
esv2665402 CNV deletion 23128226
esv3586350 CNV loss 21293372
nsv1005397 CNV gain 25217958
nsv1076523 CNV deletion 25765185
nsv1343 CNV insertion 18451855
nsv823143 CNV loss 20364138

Variation tolerance for LRRC40 Gene

Residual Variation Intolerance Score: 88.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.72; 46.50% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LRRC40 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRRC40

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRRC40 Gene

Disorders for LRRC40 Gene

Relevant External Links for LRRC40

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LRRC40

No disorders were found for LRRC40 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LRRC40 Gene

Publications for LRRC40 Gene

  1. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3 4 65
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 65
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 65
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 2 3 65
  5. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal K.B. … Olsen J.V. (Sci Signal 2015) 3 65

Products for LRRC40 Gene

Sources for LRRC40 Gene

Content
Loading form....