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Aliases for NHLRC3 Gene

Aliases for NHLRC3 Gene

  • NHL Repeat Containing 3 2 3 5

External Ids for NHLRC3 Gene

Previous GeneCards Identifiers for NHLRC3 Gene

  • GC13P038512
  • GC13P039612
  • GC13P020412

Summaries for NHLRC3 Gene

Entrez Gene Summary for NHLRC3 Gene

  • This gene encodes a protein containing NCL-1, HT2A and Lin-41 (NHL) family repeats. Mammalian NHL-repeat containing proteins may be involved in a variety of enzymatic processes, including protein modification through ubiquitination. Alternatively spliced transcript variants have been observed for this gene. [provided by RefSeq, Aug 2012]

GeneCards Summary for NHLRC3 Gene

NHLRC3 (NHL Repeat Containing 3) is a Protein Coding gene. Among its related pathways are Innate Immune System.

Additional gene information for NHLRC3 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NHLRC3 Gene

Genomics for NHLRC3 Gene

GeneHancer (GH) Regulatory Elements for NHLRC3 Gene

Promoters and enhancers for NHLRC3 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
GH13I039035 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 572.1 +0.1 68 5.8 HDGF PKNOX1 FOXA2 SMAD1 ARNT NEUROD1 SIN3A DMAP1 ZNF2 IRF4 PROSER1 NHLRC3 LHFPL6 STOML3 LOC105370169
GH13I039385 Enhancer 0.8 ENCODE 15 +347.6 347623 1.2 PKNOX1 INSM2 FEZF1 ZNF2 ZNF121 ZNF366 ZSCAN5C SCRT2 KLF7 ZNF362 NHLRC3 COG6 GC13M039383 GC13M039390 LHFPL6
GH13I039765 Enhancer 0.9 Ensembl ENCODE 10.9 +727.8 727827 0.5 CTCF INSM2 KLF17 ZNF76 FEZF1 ZIC2 ZNF2 RAD21 ZNF335 ZNF213 NHLRC3 GC13P039785 GC13P039748 COG6
GH13I038979 Enhancer 0.6 ENCODE 10.5 -57.7 -57697 2.1 MXI1 HLF REST CEBPG ATF4 POLR2A ZNF547 RCOR1 EZH2 CHD2 PROSER1 NHLRC3 STOML3 LHFPL6 GC13M038977 GC13P038946
GH13I039047 Enhancer 0.3 ENCODE 0.4 +9.5 9453 0.2 CTCF LOC105370169 NHLRC3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around NHLRC3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the NHLRC3 gene promoter:

Genomic Locations for NHLRC3 Gene

Genomic Locations for NHLRC3 Gene
chr13:39,038,306-39,050,109
(GRCh38/hg38)
Size:
11,804 bases
Orientation:
Plus strand
chr13:39,612,443-39,624,246
(GRCh37/hg19)

Genomic View for NHLRC3 Gene

Genes around NHLRC3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NHLRC3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NHLRC3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NHLRC3 Gene

Proteins for NHLRC3 Gene

  • Protein details for NHLRC3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5JS37-NHLC3_HUMAN
    Recommended name:
    NHL repeat-containing protein 3
    Protein Accession:
    Q5JS37
    Secondary Accessions:
    • B2RTZ2
    • B4DTL0
    • Q69YI9

    Protein attributes for NHLRC3 Gene

    Size:
    347 amino acids
    Molecular mass:
    38283 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for NHLRC3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NHLRC3 Gene

Post-translational modifications for NHLRC3 Gene

  • Ubiquitination at isoforms=286
  • Glycosylation at Asn32, isoforms=2101, Asn206, and isoforms=2278
  • Modification sites at PhosphoSitePlus

Other Protein References for NHLRC3 Gene

No data available for DME Specific Peptides for NHLRC3 Gene

Domains & Families for NHLRC3 Gene

Gene Families for NHLRC3 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted secreted proteins

Protein Domains for NHLRC3 Gene

Suggested Antigen Peptide Sequences for NHLRC3 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with NHLRC3: view

No data available for UniProtKB/Swiss-Prot for NHLRC3 Gene

Function for NHLRC3 Gene

Phenotypes for NHLRC3 Gene

genes like me logo Genes that share phenotypes with NHLRC3: view

miRNA for NHLRC3 Gene

miRTarBase miRNAs that target NHLRC3

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NHLRC3 Gene

Localization for NHLRC3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NHLRC3 Gene

Secreted.

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 NHLRC3 gene
Compartment Confidence
extracellular 5
lysosome 5
plasma membrane 1
mitochondrion 1
endoplasmic reticulum 1
cytosol 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for NHLRC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0035578 azurophil granule lumen TAS --
GO:0070062 extracellular exosome IDA,HDA 23376485
genes like me logo Genes that share ontologies with NHLRC3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for NHLRC3 Gene

Pathways & Interactions for NHLRC3 Gene

genes like me logo Genes that share pathways with NHLRC3: view

Pathways by source for NHLRC3 Gene

3 Reactome pathways for NHLRC3 Gene

Gene Ontology (GO) - Biological Process for NHLRC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0043312 neutrophil degranulation TAS --
genes like me logo Genes that share ontologies with NHLRC3: view

No data available for SIGNOR curated interactions for NHLRC3 Gene

Drugs & Compounds for NHLRC3 Gene

No Compound Related Data Available

Transcripts for NHLRC3 Gene

Unigene Clusters for NHLRC3 Gene

NHL repeat containing 3:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for NHLRC3 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3a · 3b · 3c ^ 4a · 4b ^ 5a · 5b · 5c ^ 6 ^ 7
SP1: - - - -
SP2: - - - - -
SP3: - - - - -
SP4:
SP5: - -
SP6:

Relevant External Links for NHLRC3 Gene

GeneLoc Exon Structure for
NHLRC3
ECgene alternative splicing isoforms for
NHLRC3

Expression for NHLRC3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NHLRC3 Gene

Protein differential expression in normal tissues from HIPED for NHLRC3 Gene

This gene is overexpressed in Urine (14.3), Testis (7.3), and Oral epithelium (6.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NHLRC3 Gene



NURSA nuclear receptor signaling pathways regulating expression of NHLRC3 Gene:

NHLRC3

SOURCE GeneReport for Unigene cluster for NHLRC3 Gene:

Hs.507783
genes like me logo Genes that share expression patterns with NHLRC3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for NHLRC3 Gene

Orthologs for NHLRC3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for NHLRC3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NHLRC3 33 34
  • 99.9 (n)
dog
(Canis familiaris)
Mammalia NHLRC3 33 34
  • 89.82 (n)
cow
(Bos Taurus)
Mammalia NHLRC3 33 34
  • 86.76 (n)
mouse
(Mus musculus)
Mammalia Nhlrc3 33 16 34
  • 83.19 (n)
rat
(Rattus norvegicus)
Mammalia Nhlrc3 33
  • 82.9 (n)
oppossum
(Monodelphis domestica)
Mammalia NHLRC3 34
  • 78 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia NHLRC3 34
  • 70 (a)
OneToOne
chicken
(Gallus gallus)
Aves NHLRC3 33 34
  • 68.62 (n)
lizard
(Anolis carolinensis)
Reptilia NHLRC3 34
  • 61 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia nhlrc3 33
  • 63.85 (n)
zebrafish
(Danio rerio)
Actinopterygii NHLRC3 34
  • 53 (a)
OneToOne
Species where no ortholog for NHLRC3 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 NHLRC3 Gene

ENSEMBL:
Gene Tree for NHLRC3 (if available)
TreeFam:
Gene Tree for NHLRC3 (if available)

Paralogs for NHLRC3 Gene

(1) SIMAP similar genes for NHLRC3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with NHLRC3: view

No data available for Paralogs for NHLRC3 Gene

Variants for NHLRC3 Gene

Sequence variations from dbSNP and Humsavar for NHLRC3 Gene

SNP ID Clin Chr 13 pos Variation AA Info Type
rs1000004272 -- 39,045,101(+) G/C intron_variant
rs1000124985 -- 39,042,549(+) A/G intron_variant
rs1000248347 -- 39,048,630(+) C/T 3_prime_UTR_variant, non_coding_transcript_variant
rs1001655427 -- 39,040,398(+) A/G intron_variant
rs1001681059 -- 39,046,396(+) T/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for NHLRC3 Gene

Variant ID Type Subtype PubMed ID
nsv1035255 CNV gain 25217958

Variation tolerance for NHLRC3 Gene

Residual Variation Intolerance Score: 87.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.20; 52.18% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NHLRC3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NHLRC3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NHLRC3 Gene

Disorders for NHLRC3 Gene

Additional Disease Information for NHLRC3

No disorders were found for NHLRC3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NHLRC3 Gene

Publications for NHLRC3 Gene

  1. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 58
  3. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. (PMID: 23376485) Prunotto M … Moll S (Journal of proteomics 2013) 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. A genome-wide association for kidney function and endocrine-related traits in the NHLBI's Framingham Heart Study. (PMID: 17903292) Hwang SJ … Fox CS (BMC medical genetics 2007) 44 58

Products for NHLRC3 Gene

Sources for NHLRC3 Gene

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