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Aliases for EXD1 Gene

Aliases for EXD1 Gene

  • Exonuclease 3'-5' Domain Containing 1 2
  • Exonuclease 3-5 Domain Containing 1 2 3 5
  • Exonuclease 3-5 Domain-Like-Containing Protein 1 3 4
  • Exonuclease 3-5 Domain-Containing Protein 1 3 4
  • Inactive Exonuclease EXD1 3 4
  • EXDL1 3 4
  • Exonuclease 3-5 Domain-Like 1 2

External Ids for EXD1 Gene

Previous HGNC Symbols for EXD1 Gene

  • EXDL1

Previous GeneCards Identifiers for EXD1 Gene

  • GC15M039264
  • GC15M041474
  • GC15M018323

Summaries for EXD1 Gene

GeneCards Summary for EXD1 Gene

EXD1 (Exonuclease 3'-5' Domain Containing 1) is a Protein Coding gene. GO annotations related to this gene include nucleic acid binding and 3-5 exonuclease activity.

UniProtKB/Swiss-Prot for EXD1 Gene

  • RNA-binding component of the PET complex, a multiprotein complex required for the processing of piRNAs during spermatogenesis. The piRNA metabolic process mediates the repression of transposable elements during meiosis by forming complexes composed of piRNAs and Piwi proteins and governs the methylation and subsequent repression of transposable elements, preventing their mobilization, which is essential for the germline integrity (By similarity). The PET complex is required during the secondary piRNAs metabolic process for the PIWIL2 slicing-triggered loading of PIWIL4 piRNAs. In the PET complex, EXD1 probably acts as an RNA adapter. EXD1 is an inactive exonuclease (By similarity).

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for EXD1 Gene

Genomics for EXD1 Gene

Regulatory Elements for EXD1 Gene

Promoters for EXD1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around EXD1 on UCSC Golden Path with GeneCards custom track

Genomic Location for EXD1 Gene

Chromosome:
15
Start:
41,182,725 bp from pter
End:
41,231,074 bp from pter
Size:
48,350 bases
Orientation:
Minus strand

Genomic View for EXD1 Gene

Genes around EXD1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
EXD1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for EXD1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for EXD1 Gene

Proteins for EXD1 Gene

  • Protein details for EXD1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8NHP7-EXD1_HUMAN
    Recommended name:
    piRNA biogenesis protein EXD1
    Protein Accession:
    Q8NHP7
    Secondary Accessions:
    • A8K909
    • B7Z839
    • Q6ZW94

    Protein attributes for EXD1 Gene

    Size:
    514 amino acids
    Molecular mass:
    58335 Da
    Quaternary structure:
    • Homodimer (By similarity). Component of the PET complex, at least composed of EXD1, PIWIL2, TDRD12 and piRNAs (By similarity).

    Alternative splice isoforms for EXD1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for EXD1 Gene

Proteomics data for EXD1 Gene at MOPED

Post-translational modifications for EXD1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for EXD1 Gene

No data available for DME Specific Peptides for EXD1 Gene

Domains & Families for EXD1 Gene

Protein Domains for EXD1 Gene

Suggested Antigen Peptide Sequences for EXD1 Gene

Graphical View of Domain Structure for InterPro Entry

Q8NHP7

UniProtKB/Swiss-Prot:

EXD1_HUMAN :
  • The 3-5 exonuclease domain lacks the conserved Asp-Glu-Asp-Asp (DEDD) residues that coordinates divalent ions essential for exonuclease activity.
  • Belongs to the EXD1 family.
Domain:
  • The 3-5 exonuclease domain lacks the conserved Asp-Glu-Asp-Asp (DEDD) residues that coordinates divalent ions essential for exonuclease activity.
  • Contains 1 3-5 exonuclease domain.
Family:
  • Belongs to the EXD1 family.
genes like me logo Genes that share domains with EXD1: view

No data available for Gene Families for EXD1 Gene

Function for EXD1 Gene

Molecular function for EXD1 Gene

UniProtKB/Swiss-Prot Function:
RNA-binding component of the PET complex, a multiprotein complex required for the processing of piRNAs during spermatogenesis. The piRNA metabolic process mediates the repression of transposable elements during meiosis by forming complexes composed of piRNAs and Piwi proteins and governs the methylation and subsequent repression of transposable elements, preventing their mobilization, which is essential for the germline integrity (By similarity). The PET complex is required during the secondary piRNAs metabolic process for the PIWIL2 slicing-triggered loading of PIWIL4 piRNAs. In the PET complex, EXD1 probably acts as an RNA adapter. EXD1 is an inactive exonuclease (By similarity).

Gene Ontology (GO) - Molecular Function for EXD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding ISS --
GO:0042803 protein homodimerization activity ISS --
genes like me logo Genes that share ontologies with EXD1: view

Phenotypes for EXD1 Gene

genes like me logo Genes that share phenotypes with EXD1: view

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for EXD1 Gene

Localization for EXD1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for EXD1 Gene

Cytoplasm. Note=Component of the meiotic nuage, also named P granule, a germ-cell-specific organelle required to repress transposon activity during meiosis. {ECO:0000250 UniProtKB:H9IUR0}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for EXD1 Gene COMPARTMENTS Subcellular localization image for EXD1 gene
Compartment Confidence
cytosol 2
nucleus 2

Gene Ontology (GO) - Cellular Components for EXD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0043186 P granule ISS --
genes like me logo Genes that share ontologies with EXD1: view

Pathways & Interactions for EXD1 Gene

SuperPathways for EXD1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for EXD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0031047 gene silencing by RNA ISS --
GO:0034587 piRNA metabolic process ISS --
GO:0090305 nucleic acid phosphodiester bond hydrolysis IEA --
genes like me logo Genes that share ontologies with EXD1: view

No data available for Pathways by source and SIGNOR curated interactions for EXD1 Gene

Drugs & Compounds for EXD1 Gene

No Compound Related Data Available

Transcripts for EXD1 Gene

mRNA/cDNA for EXD1 Gene

(10) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(4) Selected AceView cDNA sequences:
(5) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for EXD1 Gene

Exonuclease 3-5 domain containing 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for EXD1 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6a · 6b · 6c ^ 7 ^ 8 ^ 9
SP1: - - -
SP2:
SP3: -
SP4: - -

Relevant External Links for EXD1 Gene

GeneLoc Exon Structure for
EXD1
ECgene alternative splicing isoforms for
EXD1

Expression for EXD1 Gene

mRNA expression in normal human tissues for EXD1 Gene

mRNA differential expression in normal tissues according to GTEx for EXD1 Gene

This gene is overexpressed in Testis (x47.3).

Protein differential expression in normal tissues from HIPED for EXD1 Gene

This gene is overexpressed in Cerebrospinal fluid (67.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for EXD1 Gene



SOURCE GeneReport for Unigene cluster for EXD1 Gene Hs.307999

genes like me logo Genes that share expression patterns with EXD1: view

Protein tissue co-expression partners for EXD1 Gene

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for EXD1 Gene

Orthologs for EXD1 Gene

This gene was present in the common ancestor of animals.

Orthologs for EXD1 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia EXD1 35
  • 86.56 (n)
  • 82.42 (a)
EXD1 36
  • 71 (a)
OneToOne
dog
(Canis familiaris)
Mammalia EXD1 35
  • 86.76 (n)
  • 81.38 (a)
EXD1 36
  • 70 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Exd1 35
  • 78.05 (n)
  • 73.77 (a)
Exd1 16
Exd1 36
  • 64 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia EXD1 35
  • 99.59 (n)
  • 98.95 (a)
EXD1 36
  • 88 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Exd1 35
  • 79.43 (n)
  • 74.06 (a)
oppossum
(Monodelphis domestica)
Mammalia EXD1 36
  • 55 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia EXD1 36
  • 37 (a)
OneToOne
chicken
(Gallus gallus)
Aves EXD1 35
  • 60.58 (n)
  • 53.98 (a)
lizard
(Anolis carolinensis)
Reptilia EXD1 36
  • 49 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia exd1 35
  • 59.66 (n)
  • 53.99 (a)
zebrafish
(Danio rerio)
Actinopterygii exd1 35
  • 49.67 (n)
  • 40 (a)
exd1 36
  • 32 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta egl 36
  • 9 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea egal-1 36
  • 11 (a)
OneToOne
Species with no ortholog for EXD1:
  • 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)
  • 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)

Evolution for EXD1 Gene

ENSEMBL:
Gene Tree for EXD1 (if available)
TreeFam:
Gene Tree for EXD1 (if available)

Paralogs for EXD1 Gene

No data available for Paralogs for EXD1 Gene

Variants for EXD1 Gene

Sequence variations from dbSNP and Humsavar for EXD1 Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs522063 - 41,184,011(+) CACAG(C/T)CTTTC reference, missense
rs551482 -- 41,184,935(+) ACAGT(C/T)GTGAG intron-variant
rs555634 -- 41,188,194(+) acaat(A/C)cttta intron-variant
rs558339 -- 41,200,815(-) attct(A/G)ctgct intron-variant
rs575650 -- 41,197,707(+) tcact(A/G)caacc intron-variant

Structural Variations from Database of Genomic Variants (DGV) for EXD1 Gene

Variant ID Type Subtype PubMed ID
dgv2361n71 CNV Loss 21882294
nsv904109 CNV Loss 21882294

Variation tolerance for EXD1 Gene

Residual Variation Intolerance Score: 37.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.53; 29.77% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for EXD1 Gene

HapMap Linkage Disequilibrium report
EXD1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for EXD1 Gene

Disorders for EXD1 Gene

Relevant External Links for EXD1

Genetic Association Database (GAD)
EXD1
Human Genome Epidemiology (HuGE) Navigator
EXD1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
EXD1

No disorders were found for EXD1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for EXD1 Gene

Publications for EXD1 Gene

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 48 67
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 2 3
  3. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3

Products for EXD1 Gene

Sources for EXD1 Gene

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