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Aliases for LRCH4 Gene

Aliases for LRCH4 Gene

  • Leucine Rich Repeats And Calponin Homology Domain Containing 4 2 3 5
  • Leucine-Rich Repeats And Calponin Homology (CH) Domain Containing 4 2 3
  • Leucine-Rich Neuronal Protein 3 4
  • LRRN1 3 4
  • LRRN4 3 4
  • LRN 3 4
  • Leucine-Rich Repeat And Calponin Homology Domain-Containing Protein 4 3
  • Leucine-Rich Repeat Neuronal Protein 4 4
  • Leucine Rich Repeat Neuronal 4 3
  • PP14183 3

External Ids for LRCH4 Gene

Previous HGNC Symbols for LRCH4 Gene

  • LRN
  • LRRN1

Previous GeneCards Identifiers for LRCH4 Gene

  • GC07M099782
  • GC07M099814
  • GC07M100009
  • GC07M100172
  • GC07M094803

Summaries for LRCH4 Gene

Entrez Gene Summary for LRCH4 Gene

  • This gene encodes a protein that contains leucine-rich repeats (LRR) at its amino terminus and that is known to be involved in ligand binding. The carboxyl terminus may act as a membrane anchor. Identified structural elements suggest that the encoded protein resembles a receptor. [provided by RefSeq, Jul 2008]

GeneCards Summary for LRCH4 Gene

LRCH4 (Leucine Rich Repeats And Calponin Homology Domain Containing 4) is a Protein Coding gene. An important paralog of this gene is LRCH3.

Gene Wiki entry for LRCH4 Gene

No data available for UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRCH4 Gene

Genomics for LRCH4 Gene

Regulatory Elements for LRCH4 Gene

Enhancers for LRCH4 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
GH07F100538 1.5 FANTOM5 Ensembl ENCODE 12.9 +41.6 41575 12.6 CREB3L1 MLX DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC TBX21 SSRP1 SAP25 PILRA IRS3P FBXO24 LRCH4 NYAP1 TSC22D4 C7orf61 PCOLCE-AS1 PCOLCE
GH07F100554 0.2 ENCODE 12.9 +31.1 31072 1.5 HDGF HDAC1 CTCF ESRRA PKNOX1 ZBTB40 ZNF121 HIC1 ZNF316 POLR2A SAP25 FBXO24 LRCH4 NYAP1 TSC22D4 C7orf61 PCOLCE PCOLCE-AS1 MOSPD3 IRS3P
GH07F100455 0.5 ENCODE 12 +129.8 129810 1.1 ELF3 CTCF SAP130 ARID4B CEBPG ZIC2 RAD21 ZNF121 SLC30A9 SMC3 PILRA ENSG00000241357 MEPCE ZCWPW1 IRS3P SAP25 FBXO24 LRCH4 GC07P100462 PPP1R35
GH07F100454 0.6 Ensembl 11.9 +131.4 131388 1.6 ZNF362 SAP130 ZNF511 ARID4B CEBPB MNT ZIC2 ZNF664 SLC30A9 ZNF121 MEPCE ZCWPW1 IRS3P SAP25 FBXO24 LRCH4 GC07P100462 PPP1R35
GH07F100438 1.2 FANTOM5 Ensembl ENCODE 11.5 +143.4 143366 8.0 HDGF PKNOX1 ARNT CREB3L1 MLX ARID4B DMAP1 YY1 SLC30A9 FOS PILRA ZNF789 C7orf61 TSC22D4 NYAP1 ENSG00000242798 IRS3P SAP25 FBXO24 LRCH4
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around LRCH4 on UCSC Golden Path with GeneCards custom track

Promoters for LRCH4 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001050173 588 4001 HDGF PKNOX1 CREB3L1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF143 ZNF207

Genomic Location for LRCH4 Gene

Chromosome:
7
Start:
100,574,011 bp from pter
End:
100,586,188 bp from pter
Size:
12,178 bases
Orientation:
Minus strand

Genomic View for LRCH4 Gene

Genes around LRCH4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRCH4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRCH4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRCH4 Gene

Proteins for LRCH4 Gene

  • Protein details for LRCH4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75427-LRCH4_HUMAN
    Recommended name:
    Leucine-rich repeat and calponin homology domain-containing protein 4
    Protein Accession:
    O75427
    Secondary Accessions:
    • A4D2D5
    • Q8WV85
    • Q96ID0

    Protein attributes for LRCH4 Gene

    Size:
    683 amino acids
    Molecular mass:
    73450 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAC78793.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

neXtProt entry for LRCH4 Gene

Post-translational modifications for LRCH4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LRCH4 Gene

No data available for DME Specific Peptides for LRCH4 Gene

Domains & Families for LRCH4 Gene

Suggested Antigen Peptide Sequences for LRCH4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O75427

UniProtKB/Swiss-Prot:

LRCH4_HUMAN :
  • Contains 1 CH (calponin-homology) domain.
  • Contains 9 LRR (leucine-rich) repeats.
Domain:
  • Contains 1 CH (calponin-homology) domain.
Similarity:
  • Contains 9 LRR (leucine-rich) repeats.
genes like me logo Genes that share domains with LRCH4: view

No data available for Gene Families for LRCH4 Gene

Function for LRCH4 Gene

Gene Ontology (GO) - Molecular Function for LRCH4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16189514
genes like me logo Genes that share ontologies with LRCH4: view
genes like me logo Genes that share phenotypes with LRCH4: view

Animal Model Products

miRNA for LRCH4 Gene

miRTarBase miRNAs that target LRCH4

Inhibitory RNA Products

Cell Line Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LRCH4 Gene

Localization for LRCH4 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LRCH4 Gene COMPARTMENTS Subcellular localization image for LRCH4 gene
Compartment Confidence
nucleus 5
cytosol 3
endoplasmic reticulum 1
extracellular 1
golgi apparatus 1
mitochondrion 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for LRCH4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0016605 PML body IDA 16449650
genes like me logo Genes that share ontologies with LRCH4: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for LRCH4 Gene

Pathways & Interactions for LRCH4 Gene

SuperPathways for LRCH4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LRCH4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007399 nervous system development TAS 9799793
genes like me logo Genes that share ontologies with LRCH4: view

No data available for Pathways by source and SIGNOR curated interactions for LRCH4 Gene

Transcripts for LRCH4 Gene

Unigene Clusters for LRCH4 Gene

Leucine-rich repeats and calponin homology (CH) domain containing 4:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LRCH4 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11a · 11b ^ 12 ^ 13a · 13b ^ 14a · 14b ^ 15 ^ 16a · 16b · 16c ^ 17a ·
SP1: - - - - -
SP2: - - - -
SP3:
SP4:
SP5:
SP6: - -
SP7:
SP8:
SP9:
SP10: -
SP11:

ExUns: 17b ^ 18a · 18b ^ 19a · 19b · 19c ^ 20 ^ 21a · 21b ^ 22a · 22b ^ 23 ^ 24 ^ 25
SP1: -
SP2: -
SP3: - -
SP4: -
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:

Relevant External Links for LRCH4 Gene

GeneLoc Exon Structure for
LRCH4
ECgene alternative splicing isoforms for
LRCH4

Expression for LRCH4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LRCH4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LRCH4 Gene

This gene is overexpressed in Whole Blood (x7.2).

Protein differential expression in normal tissues from HIPED for LRCH4 Gene

This gene is overexpressed in Amniocyte (26.5), Peripheral blood mononuclear cells (12.3), and Monocytes (7.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for LRCH4 Gene



Protein tissue co-expression partners for LRCH4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LRCH4 Gene:

LRCH4

SOURCE GeneReport for Unigene cluster for LRCH4 Gene:

Hs.125742
genes like me logo Genes that share expression patterns with LRCH4: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt for LRCH4 Gene

Orthologs for LRCH4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LRCH4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LRCH4 34 35
  • 99.51 (n)
dog
(Canis familiaris)
Mammalia LRCH4 34 35
  • 87.43 (n)
cow
(Bos Taurus)
Mammalia LRCH4 34 35
  • 86.97 (n)
mouse
(Mus musculus)
Mammalia Gm20605 35
  • 86 (a)
OneToMany
Lrch4 34 16 35
  • 84.85 (n)
rat
(Rattus norvegicus)
Mammalia Lrch4 34
  • 84.16 (n)
oppossum
(Monodelphis domestica)
Mammalia LRCH4 35
  • 63 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LRCH4 35
  • 38 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii LOC100535148 34
  • 57.55 (n)
LRCH4 (2 of 2) 35
  • 46 (a)
OneToMany
lrch4 35
  • 45 (a)
OneToMany
Species where no ortholog for LRCH4 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)
  • chicken (Gallus gallus)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for LRCH4 Gene

ENSEMBL:
Gene Tree for LRCH4 (if available)
TreeFam:
Gene Tree for LRCH4 (if available)

Paralogs for LRCH4 Gene

(4) SIMAP similar genes for LRCH4 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with LRCH4: view

Variants for LRCH4 Gene

Sequence variations from dbSNP and Humsavar for LRCH4 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs111274869 -- 100,577,965(+) GGCTC(A/G)GGACC intron-variant
rs111359243 -- 100,585,541(+) GCTTC(A/G)TAGAC intron-variant, upstream-variant-2KB
rs111434481 -- 100,580,893(+) ACACA(A/C)ACATG intron-variant, upstream-variant-2KB
rs111523972 -- 100,584,005(+) CTCCC(C/T)GCCAC intron-variant, utr-variant-5-prime
rs111713467 -- 100,580,570(+) AACAC(-/A)ATACA intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for LRCH4 Gene

Variant ID Type Subtype PubMed ID
esv2734888 CNV deletion 23290073
nsv5868 CNV deletion 18451855
nsv607932 CNV loss 21841781
nsv831072 CNV loss 17160897
nsv951386 CNV deletion 24416366

Variation tolerance for LRCH4 Gene

Residual Variation Intolerance Score: 7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.76; 66.55% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LRCH4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRCH4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRCH4 Gene

Disorders for LRCH4 Gene

Relevant External Links for LRCH4

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LRCH4

No disorders were found for LRCH4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LRCH4 Gene

Publications for LRCH4 Gene

  1. Large-scale sequencing of two regions in human chromosome 7q22: analysis of 650 kb of genomic sequence around the EPO and CUTL1 loci reveals 17 genes. (PMID: 9799793) Gloeckner G. … Rosenthal A. (Genome Res. 1998) 2 3 4 64
  2. 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 64
  3. Human chromosome 7: DNA sequence and biology. (PMID: 12690205) Scherer S.W. … Tsui L.-C. (Science 2003) 3 4 64
  4. Substrate trapping proteomics reveals targets of the I^TrCP2/FBXW11 ubiquitin ligase. (PMID: 25332235) Kim T.Y. … Major M.B. (Mol. Cell. Biol. 2015) 3 64
  5. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3 64

Products for LRCH4 Gene

Sources for LRCH4 Gene

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