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

Aliases for LRRC56 Gene

Aliases for LRRC56 Gene

  • Leucine Rich Repeat Containing 56 2 3 5
  • Leucine-Rich Repeat-Containing Protein 56 3 4
  • CILD39 3

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. Diseases associated with LRRC56 include Ciliary Dyskinesia, Primary, 39 and Prostate Adenoid Cystic Carcinoma.

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
GH11J000534 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 618.3 +17.3 17289 4.3 SP1 ZFX ELF3 MNT CBFA2T2 NKRF MLLT1 CEBPG CSDE1 ZNF687 LRRC56 HRAS RNH1 TMEM80 PHRF1 ENSG00000255237 LMNTD2 ENSG00000254739
GH11J000518 Promoter/Enhancer 1.7 EPDnew ENCODE dbSUPER 622.3 -0.3 -268 1.1 SP1 CC2D1A ELF3 MNT CBFA2T2 ZNF148 NKRF ZNF687 CTCF ZNF24 LRRC56 PIR60912 RNH1 PIDD1 TMEM80 ENSG00000255158 LOC105376507
GH11J000501 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 22.1 -13.7 -13720 6.6 HDGF SP1 ZFX MNT NKRF MLLT1 POLR2A ZNF687 NCOA3 MYC RNH1 GC11P000507 GC11M000506 GC11M000505 LRRC56 PTDSS2 MOB2 CD151 DRD4 TMEM80
GH11J000443 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 19.2 -71.3 -71298 8.6 HDGF ZNF652 SP1 CC2D1A ZFX ELF3 CTCF MNT SIX5 CBFA2T2 PTDSS2 RNH1 LRRC56 TSPAN4 SNORA52 PHRF1 ENSG00000255237 ANO9 HRAS BET1L
GH11J000611 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 7.1 +95.3 95316 5.4 SP1 ZFX ZNF148 NKRF POLR2A ZNF687 CREM MLLT1 EGR1 ZBED1 IRF7 RNH1 SNORA52 TSPAN4 ENSG00000255237 MOB2 PHRF1 HRAS TMEM80 RPLP2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LRRC56 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LRRC56 gene promoter:
  • HEN1
  • NF-1
  • NF-1/L
  • NF-kappaB1
  • Pax-2
  • Pax-2a
  • TGIF

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)
Size:
17,395 bases
Orientation:
Plus strand

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

GenScript: Design optimal peptide antigens:
  • Leucine-rich repeat-containing protein 56 (LRC56_HUMAN)
  • LRRC56 protein (Q0P6F0_HUMAN)

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

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

Human Phenotype Ontology for LRRC56 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Model Products

CRISPR Products

Clone Products

  • Applied Biological Materials (abm): Clones for LRRC56 - Now 50% OFF >
  • * LRRC56 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * LRRC56 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , 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

PathCards logo

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

mRNA/cDNA for LRRC56 Gene

(1) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(25) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Unigene Clusters for LRRC56 Gene

Leucine rich repeat containing 56:
Representative Sequences:

CRISPR Products

Clone Products

  • Applied Biological Materials (abm): Clones for LRRC56 - Now 50% OFF >
  • * LRRC56 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * LRRC56 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

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 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 35 34
  • 98.34 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Lrrc56 17 35 34
  • 79.07 (n)
cow
(Bos Taurus)
Mammalia LRRC56 35 34
  • 79.02 (n)
OneToOne
dog
(Canis familiaris)
Mammalia LRRC56 35 34
  • 78.3 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lrrc56 34
  • 77.89 (n)
oppossum
(Monodelphis domestica)
Mammalia LRRC56 35
  • 40 (a)
OneToOne
chicken
(Gallus gallus)
Aves LRRC56 35
  • 53 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LRRC56 35
  • 51 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii LRRC56 (1 of 2) 35
  • 51 (a)
OneToMany
LRRC56 (2 of 2) 35
  • 36 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG14185 35
  • 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)
Aminode:
Evolutionary constrained regions (ECRs) for LRRC56: view image

Paralogs for LRRC56 Gene

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

  • LRC56_HUMAN
  • Q0P6F0_HUMAN
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, Lung adenocarcinoma, Pancreatic adenocarcinoma, Neoplasm of the large intestine, Multiple myeloma, Acute myeloid leukemia, Adenocarcinoma of stomach, Squamous cell lung carcinoma, 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, Lung adenocarcinoma, 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 lung carcinoma, 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, Neoplasm of the large intestine, Uterine cervical neoplasms, Hepatocellular carcinoma, Nevus sebaceous, Epidermal nevus syndrome, Epidermal nevus, NEVUS SPILUS, SOMATIC, SPITZ NEVUS, SOMATIC, Vascular Tumors Including Pyogenic Granuloma 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, Neoplasm of the large intestine, Squamous cell carcinoma of the skin, Neoplasm of the breast, Acute myeloid leukemia, Lung adenocarcinoma, 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, Urinary Bladder Neoplasms, Costello syndrome, Myopathy, congenital, with excess of muscle spindles, Epidermal nevus, not provided, Cutaneous melanoma, Neoplasm of the thyroid gland, Malignant melanoma of skin, Adenoid cystic carcinoma, Neoplasm of the large intestine, 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, Lung adenocarcinoma, Pancreatic adenocarcinoma, Inborn genetic diseases, 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

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

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

Disorders for LRRC56 Gene

MalaCards: The human disease database

(9) MalaCards diseases for LRRC56 Gene - From: HGMD, OMIM, ClinVar, and GeneCards

Disorder Aliases PubMed IDs
ciliary dyskinesia, primary, 39
  • cild39
prostate adenoid cystic carcinoma
  • adenoid cystic carcinoma of prostate
prostate squamous cell carcinoma
  • squamous cell carcinoma of prostate
spitz nevus
  • spitz naevus
noonan syndrome 3
  • ns3
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for LRRC56

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

No data available for 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

Content
Loading form....