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EXD2 exonuclease 3'-5' domain containing 2 [ Homo sapiens (human) ]

Gene ID: 55218, updated on 2-Mar-2021

Summary

Official Symbol
EXD2provided by HGNC
Official Full Name
exonuclease 3'-5' domain containing 2provided by HGNC
Primary source
HGNC:HGNC:20217
See related
Ensembl:ENSG00000081177 MIM:616940
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
EXDL2; C14orf114
Expression
Ubiquitous expression in testis (RPKM 9.7), brain (RPKM 8.0) and 25 other tissues See more
Orthologs
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Genomic context

See EXD2 in Genome Data Viewer
Location:
14q24.1
Exon count:
13
Annotation release Status Assembly Chr Location
109.20210226 current GRCh38.p13 (GCF_000001405.39) 14 NC_000014.9 (69191498..69244018)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (69658215..69710735)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene ribosomal protein S29 pseudogene 1 Neighboring gene DDB1 and CUL4 associated factor 5 Neighboring gene DEAD-box helicase 18 pseudogene 1 Neighboring gene GALNT16 and EXD2 antisense RNA 1 Neighboring gene polypeptide N-acetylgalactosaminyltransferase 16 Neighboring gene uncharacterized LOC105370549 Neighboring gene ERH mRNA splicing and mitosis factor

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ10738, DKFZp781A0133, DKFZp781L15100

Gene Ontology Provided by GOA

Function Evidence Code Pubs
3'-5' exonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
3'-5' exonuclease activity IDA
Inferred from Direct Assay
more info
PubMed 
3'-5' exonuclease activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
3'-5'-exodeoxyribonuclease activity IDA
Inferred from Direct Assay
more info
PubMed 
3'-5'-exoribonuclease activity IDA
Inferred from Direct Assay
more info
PubMed 
exodeoxyribonuclease I activity IEA
Inferred from Electronic Annotation
more info
 
magnesium ion binding IDA
Inferred from Direct Assay
more info
PubMed 
manganese ion binding IDA
Inferred from Direct Assay
more info
PubMed 
nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity IDA
Inferred from Direct Assay
more info
PubMed 
single-stranded DNA 3'-5' exodeoxyribonuclease activity IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
intermediate filament cytoskeleton IDA
Inferred from Direct Assay
more info
 
mitochondrial matrix IEA
Inferred from Electronic Annotation
more info
 
mitochondrial outer membrane IDA
Inferred from Direct Assay
more info
PubMed 
mitochondrion IDA
Inferred from Direct Assay
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
site of DNA damage IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
exonuclease 3'-5' domain-containing protein 2
Names
3'-5' exoribonuclease EXD2
exonuclease 3'-5' domain-like 2
exonuclease 3'-5' domain-like-containing protein 2
NP_001180289.1
NP_001180290.1
NP_001180291.1
NP_001180292.1
NP_060669.1
XP_005267874.1
XP_011535210.1
XP_016876910.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001193360.2NP_001180289.1  exonuclease 3'-5' domain-containing protein 2 isoform 1

    See identical proteins and their annotated locations for NP_001180289.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the predominant transcript and encodes the longer isoform (1). Variants 1-4 encode the same isoform.
    Source sequence(s)
    AK001600, AL359317, AU143711, BX647767, DB087350
    Consensus CDS
    CCDS53902.1
    UniProtKB/Swiss-Prot
    Q9NVH0
    Conserved Domains (1) summary
    cd06141
    Location:82258
    WRN_exo; DEDDy 3'-5' exonuclease domain of WRN and similar proteins
  2. NM_001193361.2NP_001180290.1  exonuclease 3'-5' domain-containing protein 2 isoform 1

    See identical proteins and their annotated locations for NP_001180290.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) is missing a 5' non-coding exon compared to variant 1. Variants 1-4 encode the same isoform (1).
    Source sequence(s)
    AK001600, AL359317, AU143711, BX647767, DB087350
    Consensus CDS
    CCDS53902.1
    UniProtKB/Swiss-Prot
    Q9NVH0
    Related
    ENSP00000387331.3, ENST00000409018.7
    Conserved Domains (1) summary
    cd06141
    Location:82258
    WRN_exo; DEDDy 3'-5' exonuclease domain of WRN and similar proteins
  3. NM_001193362.2NP_001180291.1  exonuclease 3'-5' domain-containing protein 2 isoform 1

    See identical proteins and their annotated locations for NP_001180291.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate 5' terminal non-coding exon compared to variant 1. Variants 1-4 encode the same isoform (1).
    Source sequence(s)
    AK001600, AK292563, AL359317, AU143711, BX161412, BX647767
    Consensus CDS
    CCDS53902.1
    UniProtKB/Swiss-Prot
    Q9NVH0
    UniProtKB/TrEMBL
    A8K948, Q86TX3
    Conserved Domains (1) summary
    cd06141
    Location:82258
    WRN_exo; DEDDy 3'-5' exonuclease domain of WRN and similar proteins
  4. NM_001193363.2NP_001180292.1  exonuclease 3'-5' domain-containing protein 2 isoform 1

    See identical proteins and their annotated locations for NP_001180292.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate 5' terminal non-coding exon, and is missing another 5' non-coding exon compared to variant 1. Variants 1-4 encode the same isoform (1).
    Source sequence(s)
    AK001600, AK292563, AK295601, AL359317, AU143711, BX647767, DC369956
    Consensus CDS
    CCDS53902.1
    UniProtKB/Swiss-Prot
    Q9NVH0
    UniProtKB/TrEMBL
    A8K948
    Related
    ENSP00000313140.5, ENST00000312994.9
    Conserved Domains (1) summary
    cd06141
    Location:82258
    WRN_exo; DEDDy 3'-5' exonuclease domain of WRN and similar proteins
  5. NM_018199.4NP_060669.1  exonuclease 3'-5' domain-containing protein 2 isoform 2

    See identical proteins and their annotated locations for NP_060669.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) is missing 2 internal exons compared to variant 1. This results in translation initiation from an in-frame downstream AUG and a shorter isoform (2) compared to isoform 1.
    Source sequence(s)
    AK001600, AL359317, AL834434, AU143711, BX647767, DB087350
    Consensus CDS
    CCDS9793.1
    UniProtKB/Swiss-Prot
    Q9NVH0
    Related
    ENSP00000386762.1, ENST00000409675.5
    Conserved Domains (2) summary
    cd06141
    Location:1133
    WRN_exo; DEDDy 3'-5' exonuclease domain of WRN and similar proteins
    pfam14239
    Location:238283
    RRXRR; RRXRR protein

RNA

  1. NR_034164.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) contains an additional internal exon compared to variant 1. It is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK001600, AL359317, AU143711, BX161412, BX647767, DB087350
  2. NR_034165.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) contains an alternate 5' terminal exon, and an additional internal exon compared to variant 1. It is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK001600, AK292563, AL359317, AU143711, BX161412, BX647767

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210226

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000014.9 Reference GRCh38.p13 Primary Assembly

    Range
    69191498..69244018
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017021421.2XP_016876910.1  exonuclease 3'-5' domain-containing protein 2 isoform X1

    UniProtKB/Swiss-Prot
    Q9NVH0
    Related
    ENSP00000386915.1, ENST00000409014.5
    Conserved Domains (2) summary
    cd06141
    Location:1133
    WRN_exo; DEDDy 3'-5' exonuclease domain of WRN and similar proteins
    pfam14239
    Location:238283
    RRXRR; RRXRR protein
  2. XM_011536908.3XP_011535210.1  exonuclease 3'-5' domain-containing protein 2 isoform X1

    See identical proteins and their annotated locations for XP_011535210.1

    UniProtKB/Swiss-Prot
    Q9NVH0
    Related
    ENSP00000386839.1, ENST00000409242.5
    Conserved Domains (2) summary
    cd06141
    Location:1133
    WRN_exo; DEDDy 3'-5' exonuclease domain of WRN and similar proteins
    pfam14239
    Location:238283
    RRXRR; RRXRR protein
  3. XM_005267817.4XP_005267874.1  exonuclease 3'-5' domain-containing protein 2 isoform X1

    See identical proteins and their annotated locations for XP_005267874.1

    UniProtKB/Swiss-Prot
    Q9NVH0
    Conserved Domains (2) summary
    cd06141
    Location:1133
    WRN_exo; DEDDy 3'-5' exonuclease domain of WRN and similar proteins
    pfam14239
    Location:238283
    RRXRR; RRXRR protein
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