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Aliases for LRRC56 Gene

Aliases for LRRC56 Gene

  • Leucine Rich Repeat Containing 56 2 3 5

External Ids for LRRC56 Gene

Previous GeneCards Identifiers for LRRC56 Gene

  • GC11P000529
  • GC11P000537
  • GC11P000352

Summaries for LRRC56 Gene

GeneCards Summary for LRRC56 Gene

LRRC56 (Leucine Rich Repeat Containing 56) is a Protein Coding gene.

Additional gene information for LRRC56 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRRC56 Gene

Genomics for LRRC56 Gene

GeneHancer (GH) Regulatory Elements for LRRC56 Gene

Promoters and enhancers for LRRC56 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH11I000534 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 568.3 +17.3 17289 4.3 HDGF PKNOX1 CLOCK FOXA2 MLX ARNT ARID4B SIN3A ZBTB7B POLR2B LRRC56 HRAS TMEM80 RNH1 PIDD1 DRD4 PHRF1 GATD1 ENSG00000255142 ENSG00000255158
GH11I000518 Enhancer 1.4 Ensembl ENCODE dbSUPER 572.4 0.0 -13 1.6 ARNT ARID4B SIN3A FEZF1 DMAP1 SLC30A9 CBX5 ZNF207 ZNF143 FOS LRRC56 PIR60912 RNH1 LOC105376507
GH11I000501 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 22 -13.8 -13769 6.5 HDGF PKNOX1 SMAD1 ARID4B SIN3A DMAP1 IRF4 YY1 POLR2B ZNF766 RNH1 GC11M000505 GC11M000506 GC11P000507 LRRC56 PTDSS2 GATD1 DRD4 TMEM80 GC11P000497
GH11I000443 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 19.2 -71.3 -71254 8.2 MLX ZFP64 DMAP1 IRF4 YY1 ZNF213 ZNF143 ZNF548 SP3 NFYC PTDSS2 RNH1 LRRC56 TSPAN4 SNORA52 PHRF1 ENSG00000255237 ANO9 HRAS BET1L
GH11I000611 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 7.1 +95.3 95316 5.4 HDGF PKNOX1 ATF1 SIN3A IRF4 YY1 POLR2B ZNF207 ZNF143 ATF7 IRF7 HRAS TMEM80 RNH1 LRRC56 GC11P000616 CDHR5 PIR42218 PHRF1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around LRRC56 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LRRC56 gene promoter:

Genomic Locations for LRRC56 Gene

Genomic Locations for LRRC56 Gene
chr11:519,000-554,916
(GRCh38/hg38)
Size:
35,917 bases
Orientation:
Plus strand
chr11:537,522-554,916
(GRCh37/hg19)

Genomic View for LRRC56 Gene

Genes around LRRC56 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRRC56 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRRC56 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRRC56 Gene

Proteins for LRRC56 Gene

  • Protein details for LRRC56 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IYG6-LRC56_HUMAN
    Recommended name:
    Leucine-rich repeat-containing protein 56
    Protein Accession:
    Q8IYG6
    Secondary Accessions:
    • Q8N3Q4

    Protein attributes for LRRC56 Gene

    Size:
    542 amino acids
    Molecular mass:
    58733 Da
    Quaternary structure:
    No Data Available

neXtProt entry for LRRC56 Gene

Post-translational modifications for LRRC56 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for LRRC56 Gene

Domains & Families for LRRC56 Gene

Gene Families for LRRC56 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for LRRC56 Gene

Suggested Antigen Peptide Sequences for LRRC56 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LRRC56: view

No data available for UniProtKB/Swiss-Prot for LRRC56 Gene

Function for LRRC56 Gene

Phenotypes From GWAS Catalog for LRRC56 Gene

Phenotypes for LRRC56 Gene

genes like me logo Genes that share phenotypes with LRRC56: view

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LRRC56 Gene

Localization for LRRC56 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 LRRC56 gene
Compartment Confidence
nucleus 2
cytosol 2

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for LRRC56 Gene

Pathways & Interactions for LRRC56 Gene

SuperPathways for LRRC56 Gene

No Data Available

Interacting Proteins for LRRC56 Gene

Gene Ontology (GO) - Biological Process for LRRC56 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LRRC56 Gene

Drugs & Compounds for LRRC56 Gene

No Compound Related Data Available

Transcripts for LRRC56 Gene

Unigene Clusters for LRRC56 Gene

Leucine rich repeat containing 56:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LRRC56 Gene

No ASD Table

Relevant External Links for LRRC56 Gene

GeneLoc Exon Structure for
LRRC56
ECgene alternative splicing isoforms for
LRRC56

Expression for LRRC56 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LRRC56 Gene

mRNA differential expression in normal tissues according to GTEx for LRRC56 Gene

This gene is overexpressed in Testis (x8.2) and Pituitary (x5.5).

Protein differential expression in normal tissues from HIPED for LRRC56 Gene

This gene is overexpressed in Tlymphocyte (27.9), Plasma (21.4), Brain (11.4), and Heart (8.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for LRRC56 Gene



Protein tissue co-expression partners for LRRC56 Gene

NURSA nuclear receptor signaling pathways regulating expression of LRRC56 Gene:

LRRC56

SOURCE GeneReport for Unigene cluster for LRRC56 Gene:

Hs.567655
genes like me logo Genes that share expression patterns with LRRC56: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for LRRC56 Gene

Orthologs for LRRC56 Gene

This gene was present in the common ancestor of animals.

Orthologs for LRRC56 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LRRC56 34 33
  • 98.34 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Lrrc56 33 16 34
  • 79.07 (n)
cow
(Bos Taurus)
Mammalia LRRC56 33 34
  • 79.02 (n)
dog
(Canis familiaris)
Mammalia LRRC56 34 33
  • 78.3 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lrrc56 33
  • 77.89 (n)
oppossum
(Monodelphis domestica)
Mammalia LRRC56 34
  • 40 (a)
OneToOne
chicken
(Gallus gallus)
Aves LRRC56 34
  • 53 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LRRC56 34
  • 51 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii LRRC56 (1 of 2) 34
  • 51 (a)
OneToMany
LRRC56 (2 of 2) 34
  • 36 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG14185 34
  • 24 (a)
OneToOne
Species where no ortholog for LRRC56 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)
  • 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 LRRC56 Gene

ENSEMBL:
Gene Tree for LRRC56 (if available)
TreeFam:
Gene Tree for LRRC56 (if available)

Paralogs for LRRC56 Gene

(1) SIMAP similar genes for LRRC56 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with LRRC56: view

No data available for Paralogs for LRRC56 Gene

Variants for LRRC56 Gene

Sequence variations from dbSNP and Humsavar for LRRC56 Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs104894226 pathogenic, likely-pathogenic, not-provided, not provided, Chronic lymphocytic leukemia, Hepatocellular carcinoma, Adenocarcinoma of lung, Pancreatic adenocarcinoma, Colorectal Neoplasms, Multiple myeloma, Acute myeloid leukemia, Adenocarcinoma of stomach, Squamous cell carcinoma of lung, Malignant melanoma of skin, Squamous cell carcinoma of the skin, Squamous cell carcinoma of the head and neck, Malignant neoplasm of body of uterus, Transitional cell carcinoma of the bladder, Thymoma, Neoplasm of the breast, Uterine cervical neoplasms, Costello syndrome 534,285(+) C/A/G/T genic_upstream_transcript_variant, intron_variant
rs104894227 pathogenic, Costello syndrome, not provided 533,553(+) T/C genic_upstream_transcript_variant, intron_variant
rs104894228 pathogenic, likely-pathogenic, Costello syndrome, Rasopathy, not provided, Multiple myeloma, Adenocarcinoma of lung, Squamous cell carcinoma of the head and neck, Neoplasm of the breast, Pancreatic adenocarcinoma, Malignant melanoma of skin, Neoplasm of the thyroid gland, Squamous cell carcinoma of lung, Acute myeloid leukemia, Chronic lymphocytic leukemia, Transitional cell carcinoma of the bladder, Malignant neoplasm of body of uterus, Adenocarcinoma of stomach, Neoplasm, Squamous cell carcinoma of the skin, Colorectal Neoplasms, Uterine cervical neoplasms, Hepatocellular carcinoma, Nevus sebaceous, Epidermal nevus syndrome, Epidermal nevus, NEVUS SPILUS, SOMATIC, SPITZ NEVUS, SOMATIC 534,286(+) C/A/G/T genic_upstream_transcript_variant, intron_variant
rs104894229 pathogenic, likely-pathogenic, Costello syndrome, Nevus sebaceous, Epidermal nevus, Rasopathy, not provided, Hepatocellular carcinoma, Myelodysplastic syndrome, Colorectal Neoplasms, Squamous cell carcinoma of the skin, Neoplasm of the breast, Acute myeloid leukemia, Adenocarcinoma of lung, Papillary renal cell carcinoma, sporadic, Adenocarcinoma of stomach, Neoplasm of the thyroid gland, Malignant melanoma of skin, Ovarian Serous Cystadenocarcinoma, Nasopharyngeal Neoplasms, Glioblastoma, Multiple myeloma, Carcinoma of esophagus, Uterine Carcinosarcoma, Uterine cervical neoplasms, Squamous cell carcinoma of the head and neck, Malignant neoplasm of body of uterus, Bladder carcinoma, Adenocarcinoma of prostate, Adenoid cystic carcinoma, Pancreatic adenocarcinoma, Transitional cell carcinoma of the bladder, Myopathy, congenital, with excess of muscle spindles, Epidermal nevus with urothelial cancer, somatic, Nevus, woolly hair, not specified 534,289(+) C/A/G/T genic_upstream_transcript_variant, intron_variant
rs104894230 pathogenic, likely-pathogenic, Malignant tumor of urinary bladder, Costello syndrome, Myopathy, congenital, with excess of muscle spindles, Epidermal nevus, not provided, Malignant melanoma, Neoplasm of the thyroid gland, Malignant melanoma of skin, Adenoid cystic carcinoma, Colorectal Neoplasms, Malignant neoplasm of body of uterus, Ovarian Serous Cystadenocarcinoma, Carcinoma of esophagus, Uterine Carcinosarcoma, Transitional cell carcinoma of the bladder, Adenocarcinoma of stomach, Nasopharyngeal Neoplasms, Papillary renal cell carcinoma, sporadic, Squamous cell carcinoma of the head and neck, Hepatocellular carcinoma, Adenocarcinoma of prostate, Squamous cell carcinoma of the skin, Neoplasm of the breast, Acute myeloid leukemia, Glioblastoma, Uterine cervical neoplasms, Myelodysplastic syndrome, Multiple myeloma, Adenocarcinoma of lung, Pancreatic adenocarcinoma, Costello syndrome, severe, Nevus sebaceous, Rasopathy 534,288(+) C/A/G/T genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LRRC56 Gene

Variant ID Type Subtype PubMed ID
dgv182e199 CNV deletion 23128226
dgv564n106 OTHER inversion 24896259
esv2743844 CNV deletion 23290073
esv2759794 CNV loss 17122850
esv3625069 CNV loss 21293372
esv3625070 CNV loss 21293372
nsv1039558 CNV gain 25217958
nsv1053964 CNV gain 25217958
nsv1077764 OTHER inversion 25765185
nsv1159791 CNV deletion 26073780
nsv467634 CNV loss 19166990
nsv469923 CNV loss 18288195
nsv469924 CNV gain 18288195
nsv527327 CNV loss 19592680
nsv552854 CNV loss 21841781
nsv552855 CNV loss 21841781
nsv552856 CNV gain 21841781
nsv951270 CNV deletion 24416366

Variation tolerance for LRRC56 Gene

Residual Variation Intolerance Score: 94.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.19; 75.97% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LRRC56 Gene

Human Gene Mutation Database (HGMD)
LRRC56
SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRRC56

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRRC56 Gene

Disorders for LRRC56 Gene

Additional Disease Information for LRRC56

No disorders were found for LRRC56 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LRRC56 Gene

Publications for LRRC56 Gene

  1. 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 58
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 2 3 58
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  4. The full-ORF clone resource of the German cDNA Consortium. (PMID: 17974005) Bechtel S … Schupp I (BMC genomics 2007) 4 58
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 58

Products for LRRC56 Gene

Sources for LRRC56 Gene

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