Free for academic non-profit institutions. Other users need a Commercial license

ERI1 Gene(Protein Coding)

Exoribonuclease 1

GCID:
GC08P009002
GIFtS:
44
Genes Participants
UDN Logo

Aliases for ERI1 Gene

Aliases for ERI1 Gene

  • Exoribonuclease 1 2 2 3 5
  • Histone MRNA 3-End-Specific Exoribonuclease 3 4
  • Three Prime Histone MRNA Exonuclease 1 2 3
  • Histone MRNA 3-Exonuclease 1 3 4
  • 3-5 Exonuclease ERI1 3 4
  • THEX1 3 4
  • HEXO 3 4
  • Enhanced RNAi Three Prime MRNA Exonuclease Homolog 1 (C.Elegans) 2
  • Enhanced RNAi Three Prime MRNA Exonuclease Homolog 1 3
  • Histone MRNA 3 End-Specific Exonuclease 3
  • Three Prime MRNA Exonuclease 1 3
  • 3-5 Exoribonuclease 1 3
  • 3 Exoribonuclease 3
  • Eri-1 Homolog 4
  • Protein 3hExo 4
  • EC 3.1.-.- 4
  • 3HEXO 3
  • 3EXO 4

External Ids for ERI1 Gene

Previous HGNC Symbols for ERI1 Gene

  • THEX1

Previous GeneCards Identifiers for ERI1 Gene

  • GC08P008900
  • GC08P007785

Summaries for ERI1 Gene

GeneCards Summary for ERI1 Gene

ERI1 (Exoribonuclease 1) is a Protein Coding gene. Among its related pathways are Gene Expression and rRNA processing in the nucleus and cytosol. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and ribosome binding. An important paralog of this gene is ERI3.

UniProtKB/Swiss-Prot for ERI1 Gene

  • RNA exonuclease that binds to the 3-end of histone mRNAs and degrades them, suggesting that it plays an essential role in histone mRNA decay after replication. A 2 and 3-hydroxyl groups at the last nucleotide of the histone 3-end is required for efficient degradation of RNA substrates. Also able to degrade the 3-overhangs of short interfering RNAs (siRNAs) in vitro, suggesting a possible role as regulator of RNA interference (RNAi). Requires for binding the 5-ACCCA-3 sequence present in stem-loop structure. Able to bind other mRNAs. Required for 5.8S rRNA 3-end processing. Also binds to 5.8s ribosomal RNA. Binds with high affinity to the stem-loop structure of replication-dependent histone pre-mRNAs.

Additional gene information for ERI1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ERI1 Gene

Genomics for ERI1 Gene

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for ERI1 Gene

Promoters and enhancers for ERI1 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
GH08I009002 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 598.2 +1.2 1166 2.3 FOXA2 PKNOX1 ARNT ARID4B SIN3A DMAP1 ZNF2 IRF4 YY1 POLR2B ERI1 LOC105379227 MFHAS1 RNU6-682P RPL10P19 MIR4660
GH08I009010 Enhancer 1.2 Ensembl ENCODE 50.1 +10.9 10869 5.4 PKNOX1 ATF1 SMAD1 ARNT FEZF1 IRF4 NCOA2 GTF3C2 TCF12 ZNF766 ERI1 RPL10P19 ENSG00000272267 LOC105379227 MIR4660
GH08I009022 Enhancer 0.9 Ensembl ENCODE 59.3 +22.3 22286 4.3 PKNOX1 FOXA2 MAX MZF1 EBF1 CEBPG FEZF1 RAD21 ATF7 RUNX3 ERI1 RNU7-55P PPP1R3B ENSG00000253426 ENSG00000254340 RPL10P19 MIR4660 LOC105379227
GH08I008994 Enhancer 1.3 FANTOM5 Ensembl ENCODE 40.7 -7.0 -6959 1.3 PKNOX1 FOXA2 ARID4B SIN3A BATF THRB RARA ETS1 ATF7 ETV6 ERI1 CLDN23 PPP1R3B LOC105379227 ENSG00000207244
GH08I009029 Enhancer 0.7 ENCODE 48.2 +27.8 27829 0.2 CTCF ARNT KLF17 RAD21 ARID2 SMC3 ZNF143 ZSCAN29 RCOR1 PRDM10 ERI1 RNU7-55P MIR4660 LOC105379227
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around ERI1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the ERI1 gene promoter:

Genomic Locations for ERI1 Gene

Genomic Locations for ERI1 Gene
chr8:9,002,147-9,116,746
(GRCh38/hg38)
Size:
114,600 bases
Orientation:
Plus strand
chr8:8,859,657-8,974,256
(GRCh37/hg19)

Genomic View for ERI1 Gene

Genes around ERI1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ERI1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ERI1 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for ERI1 Gene

Proteins for ERI1 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for ERI1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IV48-ERI1_HUMAN
    Recommended name:
    3-5 exoribonuclease 1
    Protein Accession:
    Q8IV48
    Secondary Accessions:
    • A8K4U7
    • Q9NSX3

    Protein attributes for ERI1 Gene

    Size:
    349 amino acids
    Molecular mass:
    40064 Da
    Cofactor:
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Quaternary structure:
    • Identified in a histone pre-mRNA complex, at least composed of ERI1, LSM11, SLBP, SNRPB, SYNCRIP and YBX1. Interacts in a cooperative manner with SLBP to the mature 3-end of histone mRNAs (By similarity). Binds to 40S and 60S ribosomal subunits and to 80S assembled ribosomes. Found in a ternary complex with SLBP and the stem-loop structure of the 3-end of histone mRNAs.
    SequenceCaution:
    • Sequence=CAB70871.2; Type=Erroneous termination; Positions=159; Note=Translated as Leu.; Evidence={ECO:0000305}; Sequence=CAB70871.2; Type=Frameshift; Positions=117; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for ERI1 Gene

neXtProt entry for ERI1 Gene

Protein Expression for ERI1 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for ERI1 Gene

  • Ubiquitination at posLast=6767 and posLast=269269
  • Modification sites at PhosphoSitePlus

Other Protein References for ERI1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for ERI1 Gene

Domains & Families for ERI1 Gene

Gene Families for ERI1 Gene

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

Protein Domains for ERI1 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for ERI1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8IV48

UniProtKB/Swiss-Prot:

ERI1_HUMAN :
  • The SAP domain is necessary for binding to the stem-loop structure of histone mRNAs and to form the ternary complex with SLBP, but not for 3-end histone mRNA exonuclease activity.
Domain:
  • The SAP domain is necessary for binding to the stem-loop structure of histone mRNAs and to form the ternary complex with SLBP, but not for 3-end histone mRNA exonuclease activity.
genes like me logo Genes that share domains with ERI1: view

Function for ERI1 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for ERI1 Gene

UniProtKB/Swiss-Prot EnzymeRegulation:
Although it can bind simultaneously with SLBP to the 3-end of histone mRNA, the presence of SLBP prevents the exonuclease activity.
UniProtKB/Swiss-Prot Function:
RNA exonuclease that binds to the 3-end of histone mRNAs and degrades them, suggesting that it plays an essential role in histone mRNA decay after replication. A 2 and 3-hydroxyl groups at the last nucleotide of the histone 3-end is required for efficient degradation of RNA substrates. Also able to degrade the 3-overhangs of short interfering RNAs (siRNAs) in vitro, suggesting a possible role as regulator of RNA interference (RNAi). Requires for binding the 5-ACCCA-3 sequence present in stem-loop structure. Able to bind other mRNAs. Required for 5.8S rRNA 3-end processing. Also binds to 5.8s ribosomal RNA. Binds with high affinity to the stem-loop structure of replication-dependent histone pre-mRNAs.

Enzyme Numbers (IUBMB) for ERI1 Gene

Phenotypes From GWAS Catalog for ERI1 Gene

Gene Ontology (GO) - Molecular Function for ERI1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000175 3-5-exoribonuclease activity TAS --
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA --
GO:0004518 nuclease activity IEA --
GO:0004527 exonuclease activity IEA --
genes like me logo Genes that share ontologies with ERI1: view
genes like me logo Genes that share phenotypes with ERI1: view

Animal Models for ERI1 Gene

MGI Knock Outs for ERI1:

Animal Model Products

Clone Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for ERI1 Gene

Localization for ERI1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ERI1 Gene

Cytoplasm. Nucleus. Nucleus, nucleolus.

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 ERI1 gene
Compartment Confidence
nucleus 5
cytoskeleton 3
plasma membrane 1
extracellular 1
mitochondrion 1
peroxisome 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Microtubules (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ERI1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus ISS --
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus ISS --
GO:0005737 cytoplasm ISS --
GO:0071204 histone pre-mRNA 3end processing complex ISS --
genes like me logo Genes that share ontologies with ERI1: view

Pathways & Interactions for ERI1 Gene

genes like me logo Genes that share pathways with ERI1: view

Pathways by source for ERI1 Gene

1 BioSystems pathway for ERI1 Gene
2 Cell Signaling Technology pathways for ERI1 Gene

Gene Ontology (GO) - Biological Process for ERI1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006259 DNA metabolic process IBA --
GO:0006364 rRNA processing TAS --
GO:0031047 gene silencing by RNA IEA --
GO:0031125 rRNA 3-end processing ISS --
GO:0071044 NOT histone mRNA catabolic process IMP 18172165
genes like me logo Genes that share ontologies with ERI1: view

No data available for SIGNOR curated interactions for ERI1 Gene

Drugs & Compounds for ERI1 Gene

Products:

  1. Drug

(1) Drugs for ERI1 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Magnesium Approved Nutra 0
genes like me logo Genes that share compounds with ERI1: view

Transcripts for ERI1 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for ERI1 Gene

(16) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(154) Selected AceView cDNA sequences:
(9) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for ERI1 Gene

Exoribonuclease 1:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for ERI1 Gene

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

Relevant External Links for ERI1 Gene

GeneLoc Exon Structure for
ERI1
ECgene alternative splicing isoforms for
ERI1

Expression for ERI1 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ERI1 Gene

mRNA expression in normal human tissues for ERI1 Gene
mRNA expression by GTEx for ERI1 GenemRNA expression by BioGPS for ERI1 Gene

Protein differential expression in normal tissues from HIPED for ERI1 Gene

This gene is overexpressed in Lung (53.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for ERI1 Gene



Protein tissue co-expression partners for ERI1 Gene

NURSA nuclear receptor signaling pathways regulating expression of ERI1 Gene:

ERI1

SOURCE GeneReport for Unigene cluster for ERI1 Gene:

Hs.20000
genes like me logo Genes that share expression patterns with ERI1: 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 , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for ERI1 Gene

Orthologs for ERI1 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for ERI1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia ERI1 33 34
  • 99.52 (n)
cow
(Bos Taurus)
 Mammalia THEX1 34
  • 90 (a)
 OneToMany
-- 34
  • 87 (a)
 OneToMany
ERI1 33
  • 86.91 (n)
dog
(Canis familiaris)
 Mammalia ERI1 33 34
  • 89.97 (n)
rat
(Rattus norvegicus)
 Mammalia Eri1 33
  • 83.86 (n)
mouse
(Mus musculus)
 Mammalia Eri1 33 16 34
  • 82.42 (n)
platypus
(Ornithorhynchus anatinus)
 Mammalia ERI1 34
  • 82 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia ERI1 34
  • 76 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves ERI1 33 34
  • 73.92 (n)
lizard
(Anolis carolinensis)
 Reptilia ERI1 34
  • 77 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia eri1 33
  • 70.77 (n)
Str.6568 33
African clawed frog
(Xenopus laevis)
 Amphibia Xl.8018 33
zebrafish
(Danio rerio)
 Actinopterygii eri1 33 34
  • 66.32 (n)
Dr.15106 33
rainbow trout
(Oncorhynchus mykiss)
 Actinopterygii Omy.6758 33
worm
(Caenorhabditis elegans)
 Secernentea eri-1 33 34
  • 48.84 (n)
crn-4 34
  • 21 (a)
 ManyToMany
sea squirt
(Ciona savignyi)
 Ascidiacea -- 34
  • 51 (a)
 OneToOne
fission yeast
(Schizosaccharomyces pombe)
 Schizosaccharomycetes eri1 33
  • 47.72 (n)
Species where no ortholog for ERI1 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)
  • 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)
  • 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)

Evolution for ERI1 Gene

ENSEMBL:
Gene Tree for ERI1 (if available)
TreeFam:
Gene Tree for ERI1 (if available)

Paralogs for ERI1 Gene

Paralogs for ERI1 Gene

genes like me logo Genes that share paralogs with ERI1: view

Variants for ERI1 Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for ERI1 Gene

SNP ID Clin Chr 08 pos Variation AA Info Type
rs1000015182 -- 8,915,090(+) C/T genic_upstream_transcript_variant, intron_variant
rs1000020953 -- 9,000,209(+) G/A genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1000030615 -- 9,011,298(+) G/C intron_variant
rs1000046886 -- 8,999,586(+) C/A genic_upstream_transcript_variant, intron_variant
rs1000084605 -- 9,068,595(+) C/G genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for ERI1 Gene

Variant ID Type Subtype PubMed ID
esv3616157 CNV loss 21293372
esv3616162 CNV loss 21293372
nsv1075109 CNV deletion 25765185
nsv610205 CNV loss 21841781
nsv831229 CNV gain+loss 17160897

Variation tolerance for ERI1 Gene

Residual Variation Intolerance Score: 17% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.80; 33.91% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ERI1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ERI1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ERI1 Gene

Disorders for ERI1 Gene

Additional Disease Information for ERI1

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

No disorders were found for ERI1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ERI1 Gene

Publications for ERI1 Gene

  1. Characterization of 3'hExo, a 3' exonuclease specifically interacting with the 3' end of histone mRNA. (PMID: 16912046) Yang XC … Dominski Z (The Journal of biological chemistry 2006) 3 4 22 58
  2. Crystallographic structure of the nuclease domain of 3'hExo, a DEDDh family member, bound to rAMP. (PMID: 15451662) Cheng Y … Patel DJ (Journal of molecular biology 2004) 3 4 22 58
  3. A 3' exonuclease that specifically interacts with the 3' end of histone mRNA. (PMID: 14536070) Dominski Z … Marzluff WF (Molecular cell 2003) 2 3 4 58
  4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  5. 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 58

Products for ERI1 Gene

Sources for ERI1 Gene

Content
Loading form....