XRN2 (5'-3' exoribonuclease 2)

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Gene miRNA Gene ontology Other IDs Protein Pathways Associated diseases Related genes Diseases linked via similar genes

Gene

• Entrez ID: 22803
• Gene name: 5'-3' exoribonuclease 2
• Gene symbol: XRN2
• Synonyms (NCBI Gene): -
• Chromosome: 20
• Chromosome location: 20p11.22
• Summary: This gene encodes a 5`-3` exonuclease that promotes transcription termination at cotranscriptional cleavage sites. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Dec 2015]

miRNA Show/Hide all (103)

miRTarBase ID	miRNA	Experiments	Reference
MIRT021397	hsa-miR-9-5p	Sequencing	20371350
MIRT045038	hsa-miR-186-5p	CLASH	23622248
MIRT036710	hsa-miR-760	CLASH	23622248
MIRT692290	hsa-miR-548ac	HITS-CLIP	23313552
MIRT692289	hsa-miR-548bb-3p	HITS-CLIP	23313552
MIRT692288	hsa-miR-548d-3p	HITS-CLIP	23313552
MIRT692287	hsa-miR-548h-3p	HITS-CLIP	23313552
MIRT692286	hsa-miR-548z	HITS-CLIP	23313552
MIRT692285	hsa-miR-548ae-3p	HITS-CLIP	23313552
MIRT692284	hsa-miR-548ah-3p	HITS-CLIP	23313552
MIRT692283	hsa-miR-548aj-3p	HITS-CLIP	23313552
MIRT692282	hsa-miR-548am-3p	HITS-CLIP	23313552
MIRT692281	hsa-miR-548aq-3p	HITS-CLIP	23313552
MIRT692280	hsa-miR-548j-3p	HITS-CLIP	23313552
MIRT692279	hsa-miR-548x-3p	HITS-CLIP	23313552
MIRT692278	hsa-miR-606	HITS-CLIP	23313552
MIRT692277	hsa-miR-4477a	HITS-CLIP	23313552
MIRT021397	hsa-miR-9-5p	Western blot	26089393
MIRT692290	hsa-miR-548ac	HITS-CLIP	23313552
MIRT692289	hsa-miR-548bb-3p	HITS-CLIP	23313552
MIRT692288	hsa-miR-548d-3p	HITS-CLIP	23313552
MIRT692287	hsa-miR-548h-3p	HITS-CLIP	23313552
MIRT692286	hsa-miR-548z	HITS-CLIP	23313552
MIRT692285	hsa-miR-548ae-3p	HITS-CLIP	23313552
MIRT692284	hsa-miR-548ah-3p	HITS-CLIP	23313552
MIRT692283	hsa-miR-548aj-3p	HITS-CLIP	23313552
MIRT692282	hsa-miR-548am-3p	HITS-CLIP	23313552
MIRT692281	hsa-miR-548aq-3p	HITS-CLIP	23313552
MIRT692280	hsa-miR-548j-3p	HITS-CLIP	23313552
MIRT692279	hsa-miR-548x-3p	HITS-CLIP	23313552
MIRT692278	hsa-miR-606	HITS-CLIP	23313552
MIRT692277	hsa-miR-4477a	HITS-CLIP	23313552
MIRT1497610	hsa-miR-199a-3p	CLIP-seq
MIRT1497611	hsa-miR-199b-3p	CLIP-seq
MIRT1497612	hsa-miR-19a	CLIP-seq
MIRT1497613	hsa-miR-19b	CLIP-seq
MIRT1497614	hsa-miR-203	CLIP-seq
MIRT1497615	hsa-miR-2052	CLIP-seq
MIRT1497616	hsa-miR-3129-5p	CLIP-seq
MIRT1497617	hsa-miR-3942-3p	CLIP-seq
MIRT1497618	hsa-miR-3978	CLIP-seq
MIRT1497619	hsa-miR-4310	CLIP-seq
MIRT1497620	hsa-miR-4672	CLIP-seq
MIRT1497621	hsa-miR-4742-3p	CLIP-seq
MIRT1497622	hsa-miR-4789-5p	CLIP-seq
MIRT1497623	hsa-miR-4803	CLIP-seq
MIRT1497624	hsa-miR-490-5p	CLIP-seq
MIRT1497625	hsa-miR-491-3p	CLIP-seq
MIRT1497626	hsa-miR-548c-3p	CLIP-seq
MIRT1497627	hsa-miR-892a	CLIP-seq
MIRT1497628	hsa-miR-9	CLIP-seq
MIRT1497629	hsa-miR-936	CLIP-seq
MIRT1497610	hsa-miR-199a-3p	CLIP-seq
MIRT1497611	hsa-miR-199b-3p	CLIP-seq
MIRT1497616	hsa-miR-3129-5p	CLIP-seq
MIRT1555629	hsa-miR-383	CLIP-seq
MIRT1497620	hsa-miR-4672	CLIP-seq
MIRT1497622	hsa-miR-4789-5p	CLIP-seq
MIRT1497629	hsa-miR-936	CLIP-seq
MIRT2149884	hsa-miR-105	CLIP-seq
MIRT2149885	hsa-miR-200b	CLIP-seq
MIRT2149886	hsa-miR-200c	CLIP-seq
MIRT1497614	hsa-miR-203	CLIP-seq
MIRT2149887	hsa-miR-3124-3p	CLIP-seq
MIRT2149888	hsa-miR-323-3p	CLIP-seq
MIRT2149889	hsa-miR-3692	CLIP-seq
MIRT2149890	hsa-miR-3942-5p	CLIP-seq
MIRT2149891	hsa-miR-429	CLIP-seq
MIRT2149892	hsa-miR-4703-5p	CLIP-seq
MIRT2149893	hsa-miR-4719	CLIP-seq
MIRT2149894	hsa-miR-4724-5p	CLIP-seq
MIRT1497628	hsa-miR-9	CLIP-seq
MIRT2149887	hsa-miR-3124-3p	CLIP-seq
MIRT2149889	hsa-miR-3692	CLIP-seq
MIRT1497617	hsa-miR-3942-3p	CLIP-seq
MIRT2149890	hsa-miR-3942-5p	CLIP-seq
MIRT1497618	hsa-miR-3978	CLIP-seq
MIRT1497619	hsa-miR-4310	CLIP-seq
MIRT2149892	hsa-miR-4703-5p	CLIP-seq
MIRT2370034	hsa-miR-4712-5p	CLIP-seq
MIRT2149893	hsa-miR-4719	CLIP-seq
MIRT1497621	hsa-miR-4742-3p	CLIP-seq
MIRT1497623	hsa-miR-4803	CLIP-seq
MIRT1497624	hsa-miR-490-5p	CLIP-seq
MIRT1497625	hsa-miR-491-3p	CLIP-seq
MIRT2370035	hsa-miR-548a-3p	CLIP-seq
MIRT2370036	hsa-miR-548aa	CLIP-seq
MIRT1497626	hsa-miR-548c-3p	CLIP-seq
MIRT2370037	hsa-miR-548e	CLIP-seq
MIRT2370038	hsa-miR-548f	CLIP-seq
MIRT2370039	hsa-miR-548g	CLIP-seq
MIRT2370040	hsa-miR-770-5p	CLIP-seq
MIRT1497628	hsa-miR-9	CLIP-seq
MIRT1497610	hsa-miR-199a-3p	CLIP-seq
MIRT1497611	hsa-miR-199b-3p	CLIP-seq
MIRT1497616	hsa-miR-3129-5p	CLIP-seq
MIRT1555629	hsa-miR-383	CLIP-seq
MIRT1497629	hsa-miR-936	CLIP-seq
MIRT1497610	hsa-miR-199a-3p	CLIP-seq
MIRT1497611	hsa-miR-199b-3p	CLIP-seq
MIRT1497616	hsa-miR-3129-5p	CLIP-seq
MIRT1555629	hsa-miR-383	CLIP-seq
MIRT1497629	hsa-miR-936	CLIP-seq

Gene ontology (GO) Show/Hide all (42)

GO ID	Ontology	Definition	Evidence	Reference
GO:0000175	Function	3'-5'-RNA exonuclease activity	EXP	23482395
GO:0000956	Process	Nuclear-transcribed mRNA catabolic process	IBA
GO:0001147	Function	Transcription termination site sequence-specific DNA binding	IDA	21700224
GO:0003676	Function	Nucleic acid binding	IEA
GO:0003677	Function	DNA binding	IEA
GO:0003723	Function	RNA binding	HDA	22658674, 22681889
GO:0003723	Function	RNA binding	IBA
GO:0004518	Function	Nuclease activity	IEA
GO:0004518	Function	Nuclease activity	TAS	10409438
GO:0004527	Function	Exonuclease activity	IEA
GO:0004534	Function	5'-3' RNA exonuclease activity	IBA
GO:0004534	Function	5'-3' RNA exonuclease activity	IEA
GO:0004534	Function	5'-3' RNA exonuclease activity	TAS	10409438
GO:0005515	Function	Protein binding	IPI	15231747, 17043677, 23125361, 25220460, 26496610, 26700805, 26779609, 29961565, 31413325, 32296183, 32814053, 33961781, 34591612
GO:0005634	Component	Nucleus	IBA
GO:0005634	Component	Nucleus	IEA
GO:0005634	Component	Nucleus	TAS	10409438
GO:0005654	Component	Nucleoplasm	IDA
GO:0005654	Component	Nucleoplasm	TAS
GO:0005730	Component	Nucleolus	IDA	12429849
GO:0005730	Component	Nucleolus	IEA
GO:0006139	Process	Nucleobase-containing compound metabolic process	IEA
GO:0006353	Process	DNA-templated transcription termination	IEA
GO:0006364	Process	RRNA processing	TAS
GO:0006369	Process	Termination of RNA polymerase II transcription	IMP	15565158
GO:0006396	Process	RNA processing	TAS	10409438
GO:0006397	Process	MRNA processing	IEA
GO:0006401	Process	RNA catabolic process	TAS	10409438
GO:0007283	Process	Spermatogenesis	IEA
GO:0007283	Process	Spermatogenesis	IEP	10409438
GO:0008270	Function	Zinc ion binding	IEA
GO:0008409	Function	5'-3' exonuclease activity	IDA	15565158
GO:0016020	Component	Membrane	HDA	19946888
GO:0016070	Process	RNA metabolic process	IEA
GO:0016070	Process	RNA metabolic process	ISS
GO:0016235	Component	Aggresome	IDA
GO:0016787	Function	Hydrolase activity	IEA
GO:0021766	Process	Hippocampus development	IEA
GO:0030182	Process	Neuron differentiation	IEA
GO:0042802	Function	Identical protein binding	IPI	32296183
GO:0046872	Function	Metal ion binding	IEA
GO:0060041	Process	Retina development in camera-type eye	IEA

Other IDs

• MIM: 608851
• HGNC: 12836
• e!Ensembl: ENSG00000088930

Protein

• UniProt ID: Q9H0D6
• Protein name: 5'-3' exoribonuclease 2 (EC 3.1.13.-) (DHM1-like protein) (DHP protein)
• Protein function: Possesses 5'->3' exoribonuclease activity (By similarity). May promote the termination of transcription by RNA polymerase II. During transcription termination, cleavage at the polyadenylation site liberates a 5' fragment which is subsequently pr
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF03159	XRN_N	1 → 254		Family
  PF17846	XRN_M	325 → 786	Xrn1 helical domain	Domain

• Tissue specificity: TISSUE SPECIFICITY: Expressed in the spleen, thymus, prostate, testis, ovary, small intestine, colon, peripheral blood leukocytes, heart, brain, placenta, lung, liver, skeletal muscle, kidney, and pancreas. Isoform 2 is expressed predominantly in peripher
• Sequence:

  MGVPAFFRWLSRKYPSIIVNCVEEKPKECNGVKIPVDASKPNPNDVEFDNLYLDMNGIIH
  PCTHPEDKPAPKNEDEMMVAIFEYIDRLFSIVRPRRLLYMAIDGVAPRAKMNQQRSRRFR
  ASKEGMEAAVEKQRVREEILAKGGFLPPEEIKERFDSNCITPGTEFMDNLAKCLRYYIAD
  RLNNDPGWKNLTVILSDASAPGEGEHKIMDYIRRQRAQPNHDPNTHHCLCGADADLIMLG
  LATHEPNFTIIREEFKPNKPKPCGLCNQFGHEVKDCEGLPREKKGKHDELADSLPCAEGE
  FIFLRLNVLREYLERELTMASLPFTFDVERSIDDWVFMCFFVGNDFLPHLPSLEIRENAI
  DRLVNIYKNVVHKTGGYLTESGYVNLQRVQMIMLAVGEVEDSIFKKRKDDEDSFRRRQKE
  KRKRMKRDQPAFTPSGILTPHALGSRNSPGSQVASNPRQAAYEMRMQNNSSPSISPNTSF
  TSDGSPSPLGGIKRKAEDSDSEPEPEDNVRLWEAGWKQRYYKNKFDVDAADEKFRRKVVQ
  SYVEGLCWVLRYYYQGCASWKWYYPFHYAPFASDFEGIADMPSDFEKGTKPFKPLEQLMG
  VFPAASGNFLPPSWRKLMSDPDSSIIDFYPEDFAIDLNGKKYAWQGVALLPFVDERRLRA
  ALEEVYPDLTPEETRRNSLGGDVLFVGKHHPLHDFILELYQTGSTEPVEVPPELCHGIQG
  KFSLDEEAILPDQIVCSPVPMLRDLTQNTVVSINFKDPQFAEDYIFKAVMLPGARKPAAV
  LKPSDWEKSSNGRQWKPQLGFNRDRRPVHLDQAAFRTLGHVMPRGSGTGIYSNAAPPPVT
  YQGNLYRPLLRGQAQIPKLMSNMRPQDSWRGPPPLFQQQRFDRGVGAEPLLPWNRMLQTQ
  NAAFQPNQYQMLAGPGGYPPRRDDRGGRQGYPREGRKYPLPPPSGRYNWN

• Sequence length: 950

Pathways

KEGG Pathway	Reactome Pathway
Ribosome biogenesis in eukaryotes	Major pathway of rRNA processing in the nucleolus and cytosol
RNA degradation

Associated diseases

Evidence Score:

• ★☆☆☆☆  Gene-disease association found in Text Mining only
• ★★☆☆☆  Found in Text Mining and Unknown/Other Associations
• ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources
• ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants)
• ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)

Unknown / Other Associations Show/Hide Unknown Diseases (8)
Phenotype Name	Clinical Significance	Source	Reference	Evidence Score
ATRIAL FIBRILLATION	—	GWAS catalog	40645996	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
ATTENTION DEFICIT HYPERACTIVITY DISORDER	—	GWAS catalog	35927488, 36702997, 37689771, 38565336, 40962958	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
AUTISM SPECTRUM DISORDER	—	GWAS catalog	30804558, 32606422, 33686288, 39580447	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
EWING SARCOMA	—	GWAS catalog	32881892	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
INSOMNIA	—	GWAS catalog	35835914	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
MAJOR DEPRESSIVE DISORDER	—	GWAS catalog	33686288	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
SCHIZOPHRENIA	—	GWAS catalog	35396580	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
SCOLIOSIS	—	GWAS catalog	30019117	★★☆☆☆ Found in Text Mining + Unknown/Other Associations

Associations from Text Mining Show/Hide Text Mining Associations (8)
Disease Name	Disease (Merged)	Source	PMID	Relationship Type	Evidence Score
Autism Spectrum Disorder	Autism	Pubtator	31230729	Associate	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Autism Spectrum Disorders	Autism Spectrum Disorder	BEFREE	31230729		★☆☆☆☆ Found in Text Mining only
Carcinoma Adenoid Cystic	Adenoid cystic carcinoma	Pubtator	21692051	Associate	★☆☆☆☆ Found in Text Mining only
Carcinoma of lung	Lung carcinoma	BEFREE	19915612, 28319071		★☆☆☆☆ Found in Text Mining only
Lung Neoplasms	Lung Neoplasms	BEFREE	19915612		★☆☆☆☆ Found in Text Mining only
Malignant neoplasm of lung	Lung Cancer	BEFREE	19915612, 28319071		★☆☆☆☆ Found in Text Mining only
Sarcoma Ewing	Sarcoma	Pubtator	32881892	Associate	★☆☆☆☆ Found in Text Mining only
Venous Thromboembolism	Venous thromboembolism	Pubtator	33388092	Associate	★☆☆☆☆ Found in Text Mining only

Related Genes

Sort by: Blended Diseases Pathways Evidence source

RCL1 2 shared pathwaysRibosome biogenesis in eukaryotes, Major pathway of rRNA processing in the nucleolus and cytosol Related via 2 shared pathways including Ribosome biogenesis in eukaryotes, Major pathway of rRNA processing in the nucleolus and cytosol. MPHOSPH10 2 shared pathwaysRibosome biogenesis in eukaryotes, Major pathway of rRNA processing in the nucleolus and cytosol Related via 2 shared pathways including Ribosome biogenesis in eukaryotes, Major pathway of rRNA processing in the nucleolus and cytosol. EMG1 2 shared pathwaysRibosome biogenesis in eukaryotes, Major pathway of rRNA processing in the nucleolus and cytosol Related via 2 shared pathways including Ribosome biogenesis in eukaryotes, Major pathway of rRNA processing in the nucleolus and cytosol. TBL3 2 shared pathwaysRibosome biogenesis in eukaryotes, Major pathway of rRNA processing in the nucleolus and cytosol Related via 2 shared pathways including Ribosome biogenesis in eukaryotes, Major pathway of rRNA processing in the nucleolus and cytosol. UTP14A 2 shared pathwaysRibosome biogenesis in eukaryotes, Major pathway of rRNA processing in the nucleolus and cytosol Related via 2 shared pathways including Ribosome biogenesis in eukaryotes, Major pathway of rRNA processing in the nucleolus and cytosol.

Related Gene	Shared Diseases	Shared Disease Names	Shared Pathways	Shared Pathway Names	Shared Evidence Sources	Shared Evidence Names
RCL1	0	[]	2	["Ribosome biogenesis in eukaryotes","Major pathway of rRNA processing in the nucleolus and cytosol"]	0	[]
MPHOSPH10	0	[]	2	["Ribosome biogenesis in eukaryotes","Major pathway of rRNA processing in the nucleolus and cytosol"]	0	[]
EMG1	0	[]	2	["Ribosome biogenesis in eukaryotes","Major pathway of rRNA processing in the nucleolus and cytosol"]	0	[]
TBL3	0	[]	2	["Ribosome biogenesis in eukaryotes","Major pathway of rRNA processing in the nucleolus and cytosol"]	0	[]
UTP14A	0	[]	2	["Ribosome biogenesis in eukaryotes","Major pathway of rRNA processing in the nucleolus and cytosol"]	0	[]

Diseases Linked via Similar Genes

Alzheimer disease Linked via 1 of 5 related genesRCL1 Bipolar disorder Linked via 1 of 5 related genesRCL1 Dementia Linked via 1 of 5 related genesRCL1 Nasopharyngeal neoplasms Linked via 1 of 5 related genesRCL1 Psychotic disorders Linked via 1 of 5 related genesRCL1

Disease	Linked Via (Gene Count)	Linked Via (Gene Names)
Alzheimer disease	1	["RCL1"]
Bipolar disorder	1	["RCL1"]
Dementia	1	["RCL1"]
Nasopharyngeal neoplasms	1	["RCL1"]
Psychotic disorders	1	["RCL1"]