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Aliases for LRRC28 Gene

Aliases for LRRC28 Gene

  • Leucine Rich Repeat Containing 28 2 3 5

External Ids for LRRC28 Gene

Previous GeneCards Identifiers for LRRC28 Gene

  • GC15P097527
  • GC15P097609
  • GC15P099791
  • GC15P075921

Summaries for LRRC28 Gene

GeneCards Summary for LRRC28 Gene

LRRC28 (Leucine Rich Repeat Containing 28) is a Protein Coding gene. An important paralog of this gene is PIDD1.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRRC28 Gene

Genomics for LRRC28 Gene

Regulatory Elements for LRRC28 Gene

Enhancers for LRRC28 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
GH15F099167 1.1 Ensembl ENCODE 15.7 -82.0 -81971 4.7 CTCF KLF1 ZNF175 EBF1 RAD21 RELA YY1 FOSL1 ZFHX2 POLR2A SYNM LRRC28 ENSG00000261616 ENSG00000261054 TTC23 ENSG00000259921 GC15M099193
GH15F099248 1.1 ENCODE 9.5 -1.0 -987 4.5 PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 TTC23 LRRC28 SYNM PIR36219 GC15M099193
GH15F099122 1.5 FANTOM5 Ensembl ENCODE 6.4 -126.8 -126789 4.2 PKNOX1 ARID4B SIN3A FEZF1 ZNF48 ZNF2 GLIS2 FOS ZNF263 REST SYNM ENSG00000261616 ENSG00000261054 TTC23 LRRC28 PIR61097 LOC105371016
GH15F099731 1 ENCODE 9.6 +481.9 481917 4.0 HDGF SIN3A ZNF48 GLIS2 ELK1 ZNF207 SP3 SP5 NFYC KAT8 LYSMD4 LRRC28 TTC23 DNM1P46 ENSG00000201724 GC15M099683
GH15F099385 1.1 Ensembl ENCODE 6.2 +134.5 134497 1.7 ELF3 CREB3L1 THRB RAD21 RARA ZNF366 ZNF143 SP3 SP5 MIER2 MEF2A LRRC28 TTC23 ENSG00000261054 SYNM GC15P099387 ENSG00000259257
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LRRC28 on UCSC Golden Path with GeneCards custom track

Promoters for LRRC28 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000414342 -1061 4600 PKNOX1 ARNT CREB3L1 WRNIP1 ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1

Genomic Location for LRRC28 Gene

Chromosome:
15
Start:
99,251,362 bp from pter
End:
99,390,729 bp from pter
Size:
139,368 bases
Orientation:
Plus strand

Genomic View for LRRC28 Gene

Genes around LRRC28 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRRC28 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRRC28 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRRC28 Gene

Proteins for LRRC28 Gene

  • Protein details for LRRC28 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86X40-LRC28_HUMAN
    Recommended name:
    Leucine-rich repeat-containing protein 28
    Protein Accession:
    Q86X40
    Secondary Accessions:
    • A8KA22
    • Q6UY49
    • Q6ZSS6

    Protein attributes for LRRC28 Gene

    Size:
    367 amino acids
    Molecular mass:
    41912 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for LRRC28 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LRRC28 Gene

Post-translational modifications for LRRC28 Gene

  • Ubiquitination at Lys 134, Lys 217, Lys 226, and Lys 243
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for LRRC28 Gene

Domains & Families for LRRC28 Gene

Protein Domains for LRRC28 Gene

Graphical View of Domain Structure for InterPro Entry

Q86X40

UniProtKB/Swiss-Prot:

LRC28_HUMAN :
  • Contains 9 LRR (leucine-rich) repeats.
Similarity:
  • Contains 9 LRR (leucine-rich) repeats.
genes like me logo Genes that share domains with LRRC28: view

No data available for Gene Families for LRRC28 Gene

Function for LRRC28 Gene

Phenotypes for LRRC28 Gene

GenomeRNAi human phenotypes for LRRC28:
genes like me logo Genes that share phenotypes with LRRC28: view

Animal Model Products

miRNA for LRRC28 Gene

miRTarBase miRNAs that target LRRC28

Inhibitory RNA Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LRRC28 Gene

Localization for LRRC28 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 LRRC28 gene
Compartment Confidence
cytosol 3
nucleus 2
golgi apparatus 2
extracellular 1
peroxisome 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for LRRC28 Gene

Pathways & Interactions for LRRC28 Gene

SuperPathways for LRRC28 Gene

No Data Available

Interacting Proteins for LRRC28 Gene

Gene Ontology (GO) - Biological Process for LRRC28 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LRRC28 Gene

Transcripts for LRRC28 Gene

Unigene Clusters for LRRC28 Gene

Leucine rich repeat containing 28:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LRRC28 Gene

No ASD Table

Relevant External Links for LRRC28 Gene

GeneLoc Exon Structure for
LRRC28
ECgene alternative splicing isoforms for
LRRC28

Expression for LRRC28 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LRRC28 Gene

Protein differential expression in normal tissues from HIPED for LRRC28 Gene

This gene is overexpressed in Plasma (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for LRRC28 Gene



Protein tissue co-expression partners for LRRC28 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LRRC28 Gene:

LRRC28

SOURCE GeneReport for Unigene cluster for LRRC28 Gene:

Hs.578684
genes like me logo Genes that share expression patterns with LRRC28: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for LRRC28 Gene

Orthologs for LRRC28 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LRRC28 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LRRC28 34 35
  • 99.18 (n)
dog
(Canis familiaris)
Mammalia LRRC28 34 35
  • 93.19 (n)
oppossum
(Monodelphis domestica)
Mammalia LRRC28 35
  • 93 (a)
OneToOne
cow
(Bos Taurus)
Mammalia LRRC28 34 35
  • 92.64 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LRRC28 35
  • 91 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lrrc28 34
  • 88.34 (n)
mouse
(Mus musculus)
Mammalia Lrrc28 34 16 35
  • 88.16 (n)
chicken
(Gallus gallus)
Aves LRRC28 34 35
  • 76.16 (n)
lizard
(Anolis carolinensis)
Reptilia LRRC28 35
  • 87 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lrrc28 34
  • 73.02 (n)
Str.4116 34
zebrafish
(Danio rerio)
Actinopterygii lrrc28 34 35
  • 67.85 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 36 (a)
OneToOne
Species where no ortholog for LRRC28 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 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 LRRC28 Gene

ENSEMBL:
Gene Tree for LRRC28 (if available)
TreeFam:
Gene Tree for LRRC28 (if available)

Paralogs for LRRC28 Gene

Pseudogenes.org Pseudogenes for LRRC28 Gene

genes like me logo Genes that share paralogs with LRRC28: view

Variants for LRRC28 Gene

Sequence variations from dbSNP and Humsavar for LRRC28 Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs1011041 -- 99,257,341(-) GGTTA(A/C)AAAGT intron-variant, upstream-variant-2KB
rs10152456 -- 99,270,643(+) cattg(A/T)atggc intron-variant
rs10152794 -- 99,260,493(+) TAGCT(A/G)CGATA intron-variant, downstream-variant-500B
rs10152912 -- 99,273,065(+) GAAGT(A/G)TAAAA intron-variant
rs10162626 -- 99,386,112(+) CACTC(A/G)AGAAC nc-transcript-variant, downstream-variant-500B, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for LRRC28 Gene

Variant ID Type Subtype PubMed ID
esv3379003 CNV insertion 20981092
esv3637424 CNV gain 21293372
esv3637426 CNV loss 21293372
esv3637427 CNV loss 21293372
esv3892741 CNV gain 25118596
nsv1045124 CNV gain 25217958
nsv1051560 CNV gain 25217958
nsv1055008 CNV gain 25217958
nsv1134487 CNV deletion 24896259
nsv516288 CNV loss 19592680
nsv570716 CNV gain 21841781
nsv977759 CNV duplication 23825009
nsv977760 CNV duplication 23825009

Variation tolerance for LRRC28 Gene

Residual Variation Intolerance Score: 30.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.74; 46.80% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LRRC28 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRRC28

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRRC28 Gene

Disorders for LRRC28 Gene

Relevant External Links for LRRC28

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LRRC28

No disorders were found for LRRC28 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LRRC28 Gene

Publications for LRRC28 Gene

  1. 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) 2 3 4 64
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  3. 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
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  5. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PMID: 17207965) Lamesch P. … Vidal M. (Genomics 2007) 3 64

Products for LRRC28 Gene

Sources for LRRC28 Gene

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