Aliases for HERPUD2 Gene

Aliases for HERPUD2 Gene

  • HERPUD Family Member 2 2 3 5
  • Homocysteine-Inducible, Endoplasmic Reticulum Stress-Inducible, Ubiquitin-Like Domain Member 2 2 3
  • Homocysteine-Responsive Endoplasmic Reticulum-Resident Ubiquitin-Like Domain Member 2 Protein 3 4

External Ids for HERPUD2 Gene

Previous GeneCards Identifiers for HERPUD2 Gene

  • GC07M035638
  • GC07M035672

Summaries for HERPUD2 Gene

GeneCards Summary for HERPUD2 Gene

HERPUD2 (HERPUD Family Member 2) is a Protein Coding gene. Diseases associated with HERPUD2 include Retinitis Pigmentosa 50. An important paralog of this gene is HERPUD1.

UniProtKB/Swiss-Prot Summary for HERPUD2 Gene

Additional gene information for HERPUD2 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for HERPUD2 Gene

Genomics for HERPUD2 Gene

GeneHancer (GH) Regulatory Elements for HERPUD2 Gene

Promoters and enhancers for HERPUD2 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HERPUD2 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for HERPUD2

Top Transcription factor binding sites by QIAGEN in the HERPUD2 gene promoter:
  • AML1a
  • AP-1
  • AREB6
  • E47
  • FOXJ2 (long isoform)
  • Hlf
  • LCR-F1
  • NRF-2
  • POU2F1
  • POU2F1a

Genomic Locations for HERPUD2 Gene

Genomic Locations for HERPUD2 Gene
chr7:35,632,659-35,695,571
(GRCh38/hg38)
Size:
62,913 bases
Orientation:
Minus strand
chr7:35,672,269-35,735,181
(GRCh37/hg19)
Size:
62,913 bases
Orientation:
Minus strand

Genomic View for HERPUD2 Gene

Genes around HERPUD2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HERPUD2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HERPUD2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HERPUD2 Gene

Proteins for HERPUD2 Gene

  • Protein details for HERPUD2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BSE4-HERP2_HUMAN
    Recommended name:
    Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 2 protein
    Protein Accession:
    Q9BSE4
    Secondary Accessions:
    • A4D1Y8
    • Q9H6F9

    Protein attributes for HERPUD2 Gene

    Size:
    406 amino acids
    Molecular mass:
    45147 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for HERPUD2 Gene

neXtProt entry for HERPUD2 Gene

Post-translational modifications for HERPUD2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HERPUD2 Gene

No data available for DME Specific Peptides for HERPUD2 Gene

Domains & Families for HERPUD2 Gene

Gene Families for HERPUD2 Gene

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

Protein Domains for HERPUD2 Gene

Blocks:
  • Ubiquitin domain
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for HERPUD2 Gene

GenScript: Design optimal peptide antigens:
  • Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 2 protein (HERP2_HUMAN)
genes like me logo Genes that share domains with HERPUD2: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for HERPUD2 Gene

Function for HERPUD2 Gene

Molecular function for HERPUD2 Gene

UniProtKB/Swiss-Prot Function:
Could be involved in the unfolded protein response (UPR) pathway.

Phenotypes From GWAS Catalog for HERPUD2 Gene

genes like me logo Genes that share phenotypes with HERPUD2: view

Animal Models for HERPUD2 Gene

MGI Knock Outs for HERPUD2:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HERPUD2

Clone Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for HERPUD2 Gene

Localization for HERPUD2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HERPUD2 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 HERPUD2 gene
Compartment Confidence
nucleus 2
endoplasmic reticulum 2
cytosol 2
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for HERPUD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with HERPUD2: view

Pathways & Interactions for HERPUD2 Gene

PathCards logo

SuperPathways for HERPUD2 Gene

No Data Available

Interacting Proteins for HERPUD2 Gene

;

Gene Ontology (GO) - Biological Process for HERPUD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006986 response to unfolded protein IEA --
GO:0007283 spermatogenesis IEA --
GO:0030968 endoplasmic reticulum unfolded protein response IBA 21873635
genes like me logo Genes that share ontologies with HERPUD2: view

No data available for Pathways by source and SIGNOR curated interactions for HERPUD2 Gene

Drugs & Compounds for HERPUD2 Gene

No Compound Related Data Available

Transcripts for HERPUD2 Gene

mRNA/cDNA for HERPUD2 Gene

1 REFSEQ mRNAs :
7 NCBI additional mRNA sequence :
7 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HERPUD2

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for HERPUD2 Gene

ExUns: 1a · 1b · 1c · 1d · 1e · 1f ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5a · 5b · 5c ^ 6 ^ 7a · 7b ^ 8 ^ 9a · 9b · 9c
SP1:
SP2: -
SP3:
SP4: - -
SP5: -
SP6: - - -
SP7: - - -
SP8: - -

Relevant External Links for HERPUD2 Gene

GeneLoc Exon Structure for
HERPUD2

Expression for HERPUD2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for HERPUD2 Gene

Protein differential expression in normal tissues from HIPED for HERPUD2 Gene

This gene is overexpressed in Placenta (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for HERPUD2 Gene



Protein tissue co-expression partners for HERPUD2 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for HERPUD2

SOURCE GeneReport for Unigene cluster for HERPUD2 Gene:

Hs.643051

Evidence on tissue expression from TISSUES for HERPUD2 Gene

  • Intestine(4.2)
  • Kidney(4.2)
  • Nervous system(3.1)
genes like me logo Genes that share expression patterns with HERPUD2: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for HERPUD2 Gene

Orthologs for HERPUD2 Gene

This gene was present in the common ancestor of animals.

Orthologs for HERPUD2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HERPUD2 31 30
  • 99.75 (n)
OneToOne
dog
(Canis familiaris)
Mammalia HERPUD2 31 30
  • 95.32 (n)
OneToOne
cow
(Bos Taurus)
Mammalia HERPUD2 31 30
  • 94.75 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Herpud2 17 31 30
  • 89.85 (n)
rat
(Rattus norvegicus)
Mammalia Herpud2 30
  • 89.36 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia HERPUD2 31
  • 73 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia HERPUD2 31
  • 68 (a)
OneToOne
chicken
(Gallus gallus)
Aves HERPUD2 31 30
  • 76.05 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia HERPUD2 31
  • 75 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia herpud2 30
  • 65.83 (n)
Str.6501 30
African clawed frog
(Xenopus laevis)
Amphibia MGC52715 30
zebrafish
(Danio rerio)
Actinopterygii herpud2 31 30
  • 61 (n)
OneToOne
zgc56020 30
fruit fly
(Drosophila melanogaster)
Insecta Herp 31 30
  • 47.46 (n)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3209 31
  • 35 (a)
OneToMany
Species where no ortholog for HERPUD2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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 HERPUD2 Gene

ENSEMBL:
Gene Tree for HERPUD2 (if available)
TreeFam:
Gene Tree for HERPUD2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for HERPUD2: view image

Paralogs for HERPUD2 Gene

Paralogs for HERPUD2 Gene

(1) SIMAP similar genes for HERPUD2 Gene using alignment to 5 proteins:

  • HERP2_HUMAN
  • C9J4Q7_HUMAN
  • C9JDD7_HUMAN
  • C9JV48_HUMAN
  • S4R420_HUMAN
genes like me logo Genes that share paralogs with HERPUD2: view

Variants for HERPUD2 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for HERPUD2 Gene

SNP ID Clinical significance and condition Chr 07 pos Variation AA Info Type
rs2305335 - p.His200Leu
rs3779234 - p.Ala108Thr

Additional dbSNP identifiers (rs#s) for HERPUD2 Gene

Structural Variations from Database of Genomic Variants (DGV) for HERPUD2 Gene

Variant ID Type Subtype PubMed ID
dgv419n21 CNV gain 19592680
esv1619444 CNV deletion 17803354
esv2659669 CNV deletion 23128226
esv3612818 CNV loss 21293372
nsv1026491 CNV gain 25217958
nsv1117707 CNV deletion 24896259
nsv1148532 CNV insertion 26484159
nsv471638 CNV gain 15918152
nsv475968 CNV novel sequence insertion 20440878
nsv527371 CNV gain 19592680
nsv5697 CNV deletion 18451855
nsv5699 CNV insertion 18451855

Variation tolerance for HERPUD2 Gene

Residual Variation Intolerance Score: 44.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 10.48; 91.04% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for HERPUD2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HERPUD2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HERPUD2 Gene

Disorders for HERPUD2 Gene

MalaCards: The human disease database

(1) MalaCards diseases for HERPUD2 Gene - From: DISEASES

Disorder Aliases PubMed IDs
retinitis pigmentosa 50
  • rp50
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for HERPUD2

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with HERPUD2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for HERPUD2 Gene

Publications for HERPUD2 Gene

  1. Coeliac disease-associated risk variants in TNFAIP3 and REL implicate altered NF-kappaB signalling. (PMID: 19240061) Trynka G … Wijmenga C (Gut 2009) 3 41 54
  2. 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 54
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 54
  4. An inter-species protein-protein interaction network across vast evolutionary distance. (PMID: 27107014) Zhong Q … Vidal M (Molecular systems biology 2016) 3 54
  5. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein MY … Mann M (Cell 2015) 3 54

Products for HERPUD2 Gene

Sources for HERPUD2 Gene