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Aliases for LRRC4B Gene

Aliases for LRRC4B Gene

  • Leucine Rich Repeat Containing 4B 2 3 5
  • Netrin-G3 Ligand 2 3 4
  • Leucine-Rich Repeats And Immunoglobulin-Like Domains 4 2 3
  • LRIG4 3 4
  • NGL-3 3 4
  • Leucine-Rich Repeat-Containing Protein 4B 3
  • HSM 3

External Ids for LRRC4B Gene

Previous HGNC Symbols for LRRC4B Gene

  • LRIG4

Previous GeneCards Identifiers for LRRC4B Gene

  • GC19M055713
  • GC19M055714
  • GC19M051020
  • GC19M047356

Summaries for LRRC4B Gene

GeneCards Summary for LRRC4B Gene

LRRC4B (Leucine Rich Repeat Containing 4B) is a Protein Coding gene. Among its related pathways are Cell adhesion molecules (CAMs). GO annotations related to this gene include receptor binding. An important paralog of this gene is LRRC4C.

UniProtKB/Swiss-Prot for LRRC4B Gene

  • Synaptic adhesion protein. Regulates the formation of excitatory synapses. The trans-synaptic adhesion between LRRC4B and PTPRF regulates the formation of excitatory synapses in a bidirectional manner (By similarity).

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRRC4B Gene

Genomics for LRRC4B Gene

Regulatory Elements for LRRC4B Gene

Enhancers for LRRC4B 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
GH19F050695 0.6 FANTOM5 13.3 -127.2 -127155 0.4 SP3 NRF1 MIER2 REST ZNF48 ZBTB7A GABPA ELK1 POLR2A MXD3 ASPDH SYT3 KCNC3 LRRC4B SHANK1 KLK6 PIR41386
GH19F050591 0.6 ENCODE 12.4 -23.5 -23540 0.2 CTCF LEF1 ZNF362 MAZ ZNF654 ZNF740 NR2F1 TEAD4 REST ZNF384 LRRC4B LINC01869 KLK1 KLK15 SNAR-F
GH19F050537 0.6 ENCODE 12 +30.3 30341 0.1 CBX3 SIN3A THRB ZNF48 ZNF2 RAD21 ZEB1 ZNF143 BCLAF1 KLF13 PRR12 ASPDH JOSD2 LRRC4B GPR32 SNORD88A SNORD88B SNORD88C NAPSA NR1H2
GH19F050535 0.5 ENCODE 12 +32.3 32281 0.2 GATA3 ASPDH JOSD2 LRRC4B GPR32 SNORD88C SNORD88A SNORD88B NAPSA NR1H2 C19orf48
GH19F051421 1.2 Ensembl ENCODE 9.8 -853.6 -853642 1.3 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF48 SLC30A9 CBX5 ZNF143 KDM4B SPACA6P-AS LRRC4B ENSG00000268711 SIGLEC10
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around LRRC4B on UCSC Golden Path with GeneCards custom track

Promoters for LRRC4B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001818551 219 1201 PKNOX1 ZSCAN18 ZFHX2 GATA3 NCOR1 PATZ1 PRDM10 FOS RCOR1 EGR2

Genomic Location for LRRC4B Gene

Chromosome:
19
Start:
50,516,892 bp from pter
End:
50,568,219 bp from pter
Size:
51,328 bases
Orientation:
Minus strand

Genomic View for LRRC4B Gene

Genes around LRRC4B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRRC4B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRRC4B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRRC4B Gene

Proteins for LRRC4B Gene

  • Protein details for LRRC4B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NT99-LRC4B_HUMAN
    Recommended name:
    Leucine-rich repeat-containing protein 4B
    Protein Accession:
    Q9NT99
    Secondary Accessions:
    • Q3ZCQ4
    • Q58F20

    Protein attributes for LRRC4B Gene

    Size:
    713 amino acids
    Molecular mass:
    76434 Da
    Quaternary structure:
    • Interacts with PTPRF. Interacts with DLG4.
    SequenceCaution:
    • Sequence=AAH19687.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for LRRC4B Gene

Post-translational modifications for LRRC4B Gene

  • N-glycosylated. O-glycosylated; contains sialic acid.
  • Glycosylation at Asn 224, Asn 283, Asn 333, Asn 374, Asn 400, Asn 422, Asn 425, Asn 444, and Asn 452
  • Modification sites at PhosphoSitePlus

Other Protein References for LRRC4B Gene

No data available for DME Specific Peptides for LRRC4B Gene

Domains & Families for LRRC4B Gene

Gene Families for LRRC4B Gene

Suggested Antigen Peptide Sequences for LRRC4B Gene

Graphical View of Domain Structure for InterPro Entry

Q9NT99

UniProtKB/Swiss-Prot:

LRC4B_HUMAN :
  • The last 4 C-terminal residues bind to the first 2 PDZ domains of DLG4.
  • Contains 9 LRR (leucine-rich) repeats.
Domain:
  • The last 4 C-terminal residues bind to the first 2 PDZ domains of DLG4.
  • Contains 1 Ig-like C2-type (immunoglobulin-like) domain.
  • Contains 1 LRRCT domain.
  • Contains 1 LRRNT domain.
Similarity:
  • Contains 9 LRR (leucine-rich) repeats.
genes like me logo Genes that share domains with LRRC4B: view

Function for LRRC4B Gene

Molecular function for LRRC4B Gene

UniProtKB/Swiss-Prot Function:
Synaptic adhesion protein. Regulates the formation of excitatory synapses. The trans-synaptic adhesion between LRRC4B and PTPRF regulates the formation of excitatory synapses in a bidirectional manner (By similarity).

Gene Ontology (GO) - Molecular Function for LRRC4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004860 protein kinase inhibitor activity IBA --
GO:0005102 receptor binding IEA --
genes like me logo Genes that share ontologies with LRRC4B: view
genes like me logo Genes that share phenotypes with LRRC4B: view

Animal Model Products

  • Taconic Biosciences Mouse Models for LRRC4B

miRNA for LRRC4B Gene

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LRRC4B Gene

Localization for LRRC4B Gene

Subcellular locations from UniProtKB/Swiss-Prot for LRRC4B Gene

Membrane; Single-pass membrane protein. Cell junction, synapse, presynaptic cell membrane.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LRRC4B Gene COMPARTMENTS Subcellular localization image for LRRC4B gene
Compartment Confidence
plasma membrane 4
cytosol 1
extracellular 1
lysosome 1
mitochondrion 1
vacuole 1

Gene Ontology (GO) - Cellular Components for LRRC4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IBA --
GO:0005886 plasma membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0030054 cell junction IEA --
genes like me logo Genes that share ontologies with LRRC4B: view

Pathways & Interactions for LRRC4B Gene

SuperPathways for LRRC4B Gene

genes like me logo Genes that share pathways with LRRC4B: view

Pathways by source for LRRC4B Gene

1 KEGG pathway for LRRC4B Gene

Interacting Proteins for LRRC4B Gene

Gene Ontology (GO) - Biological Process for LRRC4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006469 negative regulation of protein kinase activity IBA --
GO:0019221 cytokine-mediated signaling pathway IBA --
GO:0046426 negative regulation of JAK-STAT cascade IBA --
GO:0051965 positive regulation of synapse assembly ISS --
genes like me logo Genes that share ontologies with LRRC4B: view

No data available for SIGNOR curated interactions for LRRC4B Gene

Transcripts for LRRC4B Gene

Unigene Clusters for LRRC4B Gene

Leucine rich repeat containing 4B:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LRRC4B Gene

No ASD Table

Relevant External Links for LRRC4B Gene

GeneLoc Exon Structure for
LRRC4B
ECgene alternative splicing isoforms for
LRRC4B

Expression for LRRC4B Gene

mRNA expression in normal human tissues for LRRC4B Gene

mRNA differential expression in normal tissues according to GTEx for LRRC4B Gene

This gene is overexpressed in Brain - Cortex (x4.6).

Protein differential expression in normal tissues from HIPED for LRRC4B Gene

This gene is overexpressed in Cerebrospinal fluid (24.4), Fetal Brain (23.1), Frontal cortex (9.8), and Vitreous humor (7.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for LRRC4B Gene



Protein tissue co-expression partners for LRRC4B Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LRRC4B Gene:

LRRC4B

SOURCE GeneReport for Unigene cluster for LRRC4B Gene:

Hs.120873
genes like me logo Genes that share expression patterns with LRRC4B: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for LRRC4B Gene

Orthologs for LRRC4B Gene

This gene was present in the common ancestor of chordates.

Orthologs for LRRC4B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LRRC4B 34 35
  • 99.86 (n)
oppossum
(Monodelphis domestica)
Mammalia LRRC4B 35
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia LRRC4B 34 35
  • 93.25 (n)
dog
(Canis familiaris)
Mammalia LRRC4B 34 35
  • 92.33 (n)
mouse
(Mus musculus)
Mammalia Lrrc4b 34 16 35
  • 88.15 (n)
rat
(Rattus norvegicus)
Mammalia Lrrc4b 34
  • 87.58 (n)
lizard
(Anolis carolinensis)
Reptilia LRRC4B 35
  • 87 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lrrc4b 34
  • 73.4 (n)
zebrafish
(Danio rerio)
Actinopterygii lrrc4ba 35
  • 66 (a)
OneToMany
lrrc4bb 35
  • 63 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 39 (a)
OneToMany
Species where no ortholog for LRRC4B 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 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 LRRC4B Gene

ENSEMBL:
Gene Tree for LRRC4B (if available)
TreeFam:
Gene Tree for LRRC4B (if available)

Paralogs for LRRC4B Gene

(8) SIMAP similar genes for LRRC4B Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with LRRC4B: view

Variants for LRRC4B Gene

Sequence variations from dbSNP and Humsavar for LRRC4B Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs1014205 -- 50,532,978(+) TTCTG(C/G)TTCCA intron-variant
rs10153469 -- 50,559,683(+) AGGAC(C/G)CTGAT intron-variant, upstream-variant-2KB
rs10404788 -- 50,554,129(+) gctga(A/G)actac intron-variant
rs10406350 -- 50,532,598(+) CTTCC(C/T)TGGAA intron-variant
rs10406947 -- 50,563,496(+) GCACA(A/G)AGGGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LRRC4B Gene

Variant ID Type Subtype PubMed ID
esv3556530 CNV deletion 23714750
esv3556531 CNV deletion 23714750
esv994565 CNV deletion 20482838
nsv1072892 CNV deletion 25765185
nsv1121984 CNV deletion 24896259
nsv1133010 OTHER inversion 24896259
nsv1140251 OTHER inversion 24896259
nsv1144879 CNV deletion 24896259
nsv1152956 OTHER inversion 26484159
nsv2530 CNV deletion 18451855
nsv509750 CNV insertion 20534489
nsv953604 CNV deletion 24416366

Variation tolerance for LRRC4B Gene

Residual Variation Intolerance Score: 6.98% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.46; 71.55% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LRRC4B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRRC4B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRRC4B Gene

Disorders for LRRC4B Gene

Relevant External Links for LRRC4B

Genetic Association Database (GAD)
LRRC4B
Human Genome Epidemiology (HuGE) Navigator
LRRC4B
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LRRC4B

No disorders were found for LRRC4B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LRRC4B Gene

Publications for LRRC4B Gene

  1. The DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J. … Lucas S.M. (Nature 2004) 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 19 and related regions in mouse: conservative and lineage-specific evolution. (PMID: 11441184) Dehal P. … Stubbs L. (Science 2001) 2 3 64
  4. MxA interacts with and is modified by the SUMOylation machinery. (PMID: 25447205) Brantis-de-Carvalho C.E. … Valentini S.R. (Exp. Cell Res. 2015) 3 64
  5. The full-ORF clone resource of the German cDNA consortium. (PMID: 17974005) Bechtel S. … Schupp I. (BMC Genomics 2007) 4 64

Products for LRRC4B Gene

Sources for LRRC4B Gene

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