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Aliases for LRRC3B Gene

Aliases for LRRC3B Gene

  • Leucine Rich Repeat Containing 3B 2 3 5
  • Leucine-Rich Repeat Protein LRP15 3 4
  • LRP15 3 4
  • Leucine-Rich Repeat-Containing Protein 3B 3

External Ids for LRRC3B Gene

Summaries for LRRC3B Gene

Entrez Gene Summary for LRRC3B Gene

  • The protein encoded by this gene is a tumor suppressor, with lowered expression levels found in gastric, renal, colorectal, lung, and breast cancer tissues. The promoter of this gene is frequently hypermethylated in these cancer tissues, although the hypermethylation does not appear to be the cause of the reduced expression of this gene. Several transcript variants encoding the same protein have been found for this gene. [provided by RefSeq, Dec 2015]

GeneCards Summary for LRRC3B Gene

LRRC3B (Leucine Rich Repeat Containing 3B) is a Protein Coding gene. An important paralog of this gene is LRRC3.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRRC3B Gene

Genomics for LRRC3B Gene

Regulatory Elements for LRRC3B Gene

Enhancers for LRRC3B 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
GH03F026437 0.6 ENCODE 7 -184.7 -184664 1.4 ZNF362 ZNF316 GATA3 ZNF366 ZFP37 MAFK NFE2L2 LRRC3B GC03P026423 PIR62114
GH03F026646 0.3 FANTOM5 3.3 +24.0 23984 0.4 LRRC3B ENSG00000234165
GH03F026717 0.3 FANTOM5 2.4 +94.6 94551 0.2 LRRC3B ENSG00000234165 PIR41923
GH03F026624 0.4 ENCODE 0.8 +1.7 1705 0.2 SUZ12 LRRC3B ENSG00000234165
GH03F026651 0.5 ENCODE 0.3 +30.3 30287 3.0 SMARCA4 POLR2A ZNF24 MAFK LRRC3B ENSG00000234165
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LRRC3B on UCSC Golden Path with GeneCards custom track

Promoters for LRRC3B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001846146 94 601 SMARCA4 SCRT2 ZBTB20 EZH2

Genomic Location for LRRC3B Gene

Chromosome:
3
Start:
26,622,806 bp from pter
End:
26,710,776 bp from pter
Size:
87,971 bases
Orientation:
Plus strand

Genomic View for LRRC3B Gene

Genes around LRRC3B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRRC3B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRRC3B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRRC3B Gene

Proteins for LRRC3B Gene

  • Protein details for LRRC3B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96PB8-LRC3B_HUMAN
    Recommended name:
    Leucine-rich repeat-containing protein 3B
    Protein Accession:
    Q96PB8
    Secondary Accessions:
    • Q5M8T0

    Protein attributes for LRRC3B Gene

    Size:
    259 amino acids
    Molecular mass:
    29275 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for LRRC3B Gene

neXtProt entry for LRRC3B Gene

Post-translational modifications for LRRC3B Gene

  • Glycosylation at Asn 47 and Asn 94
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for LRRC3B Gene

Domains & Families for LRRC3B Gene

Suggested Antigen Peptide Sequences for LRRC3B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q96PB8

UniProtKB/Swiss-Prot:

LRC3B_HUMAN :
  • Contains 1 LRRCT domain.
  • Belongs to the LRRC3 family.
  • Contains 3 LRR (leucine-rich) repeats.
Domain:
  • Contains 1 LRRCT domain.
  • Contains 1 LRRNT domain.
Family:
  • Belongs to the LRRC3 family.
Similarity:
  • Contains 3 LRR (leucine-rich) repeats.
genes like me logo Genes that share domains with LRRC3B: view

No data available for Gene Families for LRRC3B Gene

Function for LRRC3B Gene

genes like me logo Genes that share phenotypes with LRRC3B: view

Animal Models for LRRC3B Gene

MGI Knock Outs for LRRC3B:

Animal Model 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 , miRNA , Transcription Factor Targets and HOMER Transcription for LRRC3B Gene

Localization for LRRC3B Gene

Subcellular locations from UniProtKB/Swiss-Prot for LRRC3B Gene

Membrane; Single-pass membrane protein.

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 LRRC3B gene
Compartment Confidence
plasma membrane 2
extracellular 1
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for LRRC3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with LRRC3B: view

Pathways & Interactions for LRRC3B Gene

SuperPathways for LRRC3B Gene

No Data Available

Gene Ontology (GO) - Biological Process for LRRC3B Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LRRC3B Gene

Transcripts for LRRC3B Gene

Unigene Clusters for LRRC3B Gene

Leucine rich repeat containing 3B:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LRRC3B Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b
SP1: - -
SP2:
SP3: - - - -

Relevant External Links for LRRC3B Gene

GeneLoc Exon Structure for
LRRC3B
ECgene alternative splicing isoforms for
LRRC3B

Expression for LRRC3B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LRRC3B Gene

mRNA differential expression in normal tissues according to GTEx for LRRC3B Gene

This gene is overexpressed in Brain - Amygdala (x5.7), Brain - Cerebellar Hemisphere (x5.3), Brain - Nucleus accumbens (basal ganglia) (x5.0), Brain - Putamen (basal ganglia) (x4.3), Brain - Cerebellum (x4.3), and Brain - Caudate (basal ganglia) (x4.2).

Protein differential expression in normal tissues from HIPED for LRRC3B Gene

This gene is overexpressed in Heart (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for LRRC3B Gene



Protein tissue co-expression partners for LRRC3B Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LRRC3B Gene:

LRRC3B

SOURCE GeneReport for Unigene cluster for LRRC3B Gene:

Hs.517868
genes like me logo Genes that share expression patterns with LRRC3B: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for LRRC3B Gene

Orthologs for LRRC3B Gene

This gene was present in the common ancestor of chordates.

Orthologs for LRRC3B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LRRC3B 34 35
  • 99.74 (n)
oppossum
(Monodelphis domestica)
Mammalia LRRC3B 35
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LRRC3B 34 35
  • 95.62 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LRRC3B 35
  • 94 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lrrc3b 34
  • 91.12 (n)
mouse
(Mus musculus)
Mammalia Lrrc3b 34 16 35
  • 90.35 (n)
cow
(Bos Taurus)
Mammalia LRRC3B 34 35
  • 90.09 (n)
chicken
(Gallus gallus)
Aves LRRC3B 34 35
  • 87.26 (n)
lizard
(Anolis carolinensis)
Reptilia LRRC3B 35
  • 94 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lrrc3b 34
  • 82.63 (n)
zebrafish
(Danio rerio)
Actinopterygii lrrc3b 34 35
  • 63.52 (n)
Dr.18976 34
Species where no ortholog for LRRC3B 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)
  • 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)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for LRRC3B Gene

ENSEMBL:
Gene Tree for LRRC3B (if available)
TreeFam:
Gene Tree for LRRC3B (if available)

Paralogs for LRRC3B Gene

Paralogs for LRRC3B Gene

(6) SIMAP similar genes for LRRC3B Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with LRRC3B: view

Variants for LRRC3B Gene

Sequence variations from dbSNP and Humsavar for LRRC3B Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs10446420 -- 26,628,521(+) aGATT(G/T)GAATA intron-variant
rs10470656 -- 26,659,179(+) TCCTA(C/T)GAAGT intron-variant
rs10592635 -- 26,649,471(+) GACTC(-/TT)TTTCC intron-variant
rs10598392 -- 26,630,481(+) ATAAT(-/AAT)GCCTC intron-variant
rs10707193 -- 26,640,427(+) AAACT(-/A)AAAAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LRRC3B Gene

Variant ID Type Subtype PubMed ID
nsv834649 CNV gain 17160897
nsv526575 CNV loss 19592680
nsv1007968 CNV gain 25217958
esv3595649 CNV loss 21293372
esv3595648 CNV loss 21293372
esv3575557 CNV gain 25503493
esv2741743 CNV deletion 23290073
esv2725064 CNV deletion 23290073
esv2660739 CNV deletion 23128226

Variation tolerance for LRRC3B Gene

Residual Variation Intolerance Score: 32.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.12; 2.65% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LRRC3B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRRC3B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRRC3B Gene

Disorders for LRRC3B Gene

Relevant External Links for LRRC3B

Genetic Association Database (GAD)
LRRC3B
Human Genome Epidemiology (HuGE) Navigator
LRRC3B
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LRRC3B

No disorders were found for LRRC3B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LRRC3B Gene

Publications for LRRC3B Gene

  1. 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
  2. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark H.F. … Gray A.M. (Genome Res. 2003) 3 4 64
  3. LRRC3B is downregulated in non-small-cell lung cancer and inhibits cancer cell proliferation and invasion. (PMID: 26276358) Kan L. … He P. (Tumour Biol. 2015) 3 64
  4. The clinical value of LRRC3B gene expression and promoter hypermethylation in breast carcinomas. (PMID: 24839112) Wang Y. … Zhong H. (Cell Biochem. Biophys. 2014) 3 64
  5. Methylation pattern of the putative tumor-suppressor gene LRRC3B promoter in clear cell renal cell carcinomas. (PMID: 22101383) Kondratov A.G. … Kashuba V.I. (Mol Med Rep 2012) 3 64

Products for LRRC3B Gene

Sources for LRRC3B Gene

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