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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 LRCH1.

Gene Wiki entry for LRCH4 Gene

Additional gene information for LRCH4 Gene

No data available for CIViC summary , 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
GH07H100538 2 FANTOM5 Ensembl ENCODE dbSUPER 23.2 +41.6 41575 12.6 MLX DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC SSRP1 GLIS1 RCOR2 SAP25 SRRT MEPCE PPP1R35 ZSCAN25 GIGYF1 AP4M1 PCOLCE-AS1 FBXO24 LRCH4
GH07H100427 1.5 ENCODE dbSUPER 21.3 +153.0 152989 10.8 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF548 SP3 NFYC ZC3H11A ZSCAN25 SRRT GIGYF1 TRIM4 AP4M1 PILRA LOC100131859 ZNF3 PPP1R35 ZSCAN21
GH07H100835 1.9 FANTOM5 Ensembl ENCODE dbSUPER 10.7 -250.6 -250648 2.5 PKNOX1 ARNT SIN3A FEZF1 ZNF2 YY1 ZNF766 CBX5 ZNF143 SP3 SRRT TRIM4 ZNF3 GIGYF1 STAG3L5P AP4M1 ENSG00000242798 PPP1R35 MEPCE PILRB
GH07H100438 1.7 FANTOM5 Ensembl ENCODE 11.6 +143.4 143366 8 HDGF PKNOX1 MLX ARNT ARID4B DMAP1 YY1 SLC30A9 ZNF766 FOS PILRA C7orf61 TSC22D4 NYAP1 IRS3P SAP25 LRCH4 FBXO24 GPC2 PVRIG
GH07H099996 1.8 VISTA Ensembl ENCODE dbSUPER 10.5 +588.5 588481 2.2 HDGF PKNOX1 FOXA2 MLX ARID4B DMAP1 YBX1 YY1 ETS1 SLC30A9 TRIM4 ZSCAN25 ZNF3 ZNF394 ZNF655 PCOLCE PTCD1 LOC100419643 SMURF1 SRRT
- Elite enhancer and/or Elite enhancer-gene association 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
ENSR00000327494 -112 2601 HDGF FOXA2 PKNOX1 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B YY1 ZNF143
ENSR00000215825 1788 401 DPF2 REST GABPA MEF2D TARDBP IKZF1 NBN MLLT1 ZNF600 IKZF2

Genomic Locations for LRCH4 Gene

Genomic Locations for LRCH4 Gene
chr7:100,574,011-100,586,188
(GRCh38/hg38)
Size:
12,178 bases
Orientation:
Minus strand
chr7:100,169,855-100,183,776
(GRCh37/hg19)

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

Gene Families for LRCH4 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Suggested Antigen Peptide Sequences for LRCH4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

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

No data available for UniProtKB/Swiss-Prot for LRCH4 Gene

Function for LRCH4 Gene

Phenotypes From GWAS Catalog 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

miRNA for LRCH4 Gene

miRTarBase miRNAs that target LRCH4

Clone 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
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 LRCH4 gene
Compartment Confidence
nucleus 5
plasma membrane 3
cytosol 3
extracellular 1
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Focal adhesion sites (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for LRCH4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IBA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0016323 basolateral plasma membrane IBA --
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:0007165 signal transduction IBA --
GO:0007399 nervous system development TAS 9799793
GO:0045199 maintenance of epithelial cell apical/basal polarity IBA --
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

Drugs & Compounds for LRCH4 Gene

No Compound Related Data Available

Transcripts for LRCH4 Gene

Unigene Clusters for LRCH4 Gene

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

Clone 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 CGAP 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

Evidence on tissue expression from TISSUES for LRCH4 Gene

  • Liver(4.2)
  • Muscle(4.2)
  • Skin(4.2)
  • Nervous system(3.9)
genes like me logo Genes that share expression patterns with LRCH4: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer 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 33 34
  • 99.51 (n)
dog
(Canis familiaris)
Mammalia LRCH4 33 34
  • 87.43 (n)
cow
(Bos Taurus)
Mammalia LRCH4 33 34
  • 86.97 (n)
mouse
(Mus musculus)
Mammalia Gm20605 34
  • 86 (a)
OneToMany
Lrch4 33 16 34
  • 84.85 (n)
rat
(Rattus norvegicus)
Mammalia Lrch4 33
  • 84.16 (n)
oppossum
(Monodelphis domestica)
Mammalia LRCH4 34
  • 63 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LRCH4 34
  • 38 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii LOC100535148 33
  • 57.55 (n)
LRCH4 (2 of 2) 34
  • 46 (a)
OneToMany
lrch4 34
  • 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

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
rs1000004142 -- 100,579,437(+) CTAAA(A/G)ATACA intron-variant
rs1000083112 -- 100,587,590(+) GAGCC(A/C)CCGCG intron-variant, upstream-variant-2KB
rs1000116950 -- 100,574,325(+) CCTCT(C/T)CCAGG upstream-variant-2KB, reference, missense, utr-variant-3-prime
rs1000446188 -- 100,574,090(+) GTCCT(C/T)CCACC upstream-variant-2KB, reference, missense, utr-variant-3-prime
rs1000870684 -- 100,584,604(+) ATCTG(G/T)AGTGT intron-variant, upstream-variant-2KB

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

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

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) Glöckner G … Rosenthal A (Genome research 1998) 2 3 4 60
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  3. Human chromosome 7: DNA sequence and biology. (PMID: 12690205) Scherer SW … Tsui LC (Science (New York, N.Y.) 2003) 3 4 60
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 60
  5. Substrate trapping proteomics reveals targets of the βTrCP2/FBXW11 ubiquitin ligase. (PMID: 25332235) Kim TY … Major MB (Molecular and cellular biology 2015) 3 60

Products for LRCH4 Gene

Sources for LRCH4 Gene

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