Gene Details | GeDiPNet - Complete Gene Info, Disease Associations & Pathways

Gene Gene information from NCBI Gene database. Gene miRNA Gene ontology Other IDs Protein Pathways Associated diseases
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]

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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

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

MIM	HGNC	e!Ensembl
608851	12836	ENSG00000088930

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

Interactions

View interactions

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

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)

Show/Hide Unknown Diseases (8)

Phenotype Name	Clinical Significance	Source	Evidence Score
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
ATRIAL FIBRILLATION	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
ATTENTION DEFICIT HYPERACTIVITY DISORDER	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
AUTISM SPECTRUM DISORDER	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
EWING SARCOMA	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
INSOMNIA	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
MAJOR DEPRESSIVE DISORDER	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
SCHIZOPHRENIA	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
SCOLIOSIS	—	GWAS catalog	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations

Show/Hide Text Mining Associations (6)

Disease Name	Relationship Type	References	Evidence Score
Associations from Text MiningDisease associations identified through Pubtator
Auriculo condylar syndrome	Associate	30806792	★★★★★ ★☆☆☆☆ Found in Text Mining only
Autism Spectrum Disorder	Associate	31230729	★★★★★ ★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Carcinoma Adenoid Cystic	Associate	21692051	★★★★★ ★☆☆☆☆ Found in Text Mining only
Neoplasms	Associate	32859985	★★★★★ ★☆☆☆☆ Found in Text Mining only
Sarcoma Ewing	Associate	32881892	★★★★★ ★☆☆☆☆ Found in Text Mining only
Venous Thromboembolism	Associate	33388092	★★★★★ ★☆☆☆☆ Found in Text Mining only

XRN2 (5'-3' exoribonuclease 2)