Xrn1 MGI Mouse Gene Detail - MGI:891964

Symbol

Xrn1
Name

5'-3' exoribonuclease 1
Synonyms

Dhm2, mXrn1

Feature Type

protein coding gene
IDs

MGI:891964
NCBI Gene: 24127
Alliance

gene page
Transcription Start Sites

6 TSS

Sequence Map

Chr9:95836813-95939856 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 9, 50.31 cM, cytoband E4
Mapping Data

2 experiments

SNPs within 2kb

2390 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_891964	protein coding gene	Chr9:95836803-95939859 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0035140	protein coding gene	Chr9:97113654-97221061 (+)
A/J	MGP_AJ_G0035121	protein coding gene	Chr9:93740191-93842477 (+)
AKR/J	MGP_AKRJ_G0035053	protein coding gene	Chr9:96010573-96120811 (+)
BALB/cJ	MGP_BALBcJ_G0035114	protein coding gene	Chr9:93424497-93527787 (+)
C3H/HeJ	MGP_C3HHeJ_G0034824	protein coding gene	Chr9:96438910-96544703 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0035634	protein coding gene	Chr9:99897536-100005938 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0032535	protein coding gene	Chr9:91557591-91664865 (+)
CAST/EiJ	MGP_CASTEiJ_G0034136	protein coding gene	Chr9:96171784-96284762 (+)
CBA/J	MGP_CBAJ_G0034792	protein coding gene	Chr9:103365281-103479819 (+)
DBA/2J	MGP_DBA2J_G0034954	protein coding gene	Chr9:93262448-93368687 (+)
FVB/NJ	MGP_FVBNJ_G0034902	protein coding gene	Chr9:92106673-92211940 (+)
LP/J	MGP_LPJ_G0035033	protein coding gene	Chr9:97371937-97499779 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0034941	protein coding gene	Chr9:105366400-105474229 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0035656	protein coding gene	Chr9:96237626-96350158 (+)
PWK/PhJ	MGP_PWKPhJ_G0033843	protein coding gene	Chr9:93419561-93526259 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0033678	protein coding gene	Chr9:96248563-96357727 (+)
WSB/EiJ	MGP_WSBEiJ_G0034256	protein coding gene	Chr9:96109478-96218096 (+)

Human Ortholog

XRN1, 5'-3' exoribonuclease 1

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

XRN1, 5'-3' exoribonuclease 1
Synonyms

SEP1
Links

HGNC:30654

NCBI Gene ID: 54464

neXtProt AC: NX_Q8IZH2

UniProt: Q8IZH2
Chr Location

3q23; chr3:142306607-142448062 (-) GRCh38

MGI Vertebrate Homology

Xrn1 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: XRN1
Protein SuperFamily

Exonuclease_Xnr1
Gene Tree

Xrn1

Diseases

1 with human XRN1 associations

				Human Disease	Mouse Models
				Alzheimer's disease IDs Alzheimer's disease DOID:10652 ICD10CM:G30 ICD9CM:331.0 KEGG:05010 MESH:D000544 NCI:C2866 UMLS_CUI:C0002395

Click on a disease name to see all genes associated with that disease.

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Phenotype Summary

27 phenotypes from 2 alleles in 2 genetic backgrounds
9 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

19
Chemically induced (other)

1
Endonuclease-mediated

4
Gene trapped

14
Genomic Mutations

1 involving Xrn1
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

79 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

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All GO Annotations

29
GO References

8

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

706
cDNA Data

28
Literature Summary

2

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase xrn1

ZFIN xrn1

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All Sequences

72
RefSeq

18
UniProt

5
CCDS

CCDS40728.1, CCDS81053.1

Ensembl

ENSMUSG00000032410 (Evidence)
NCBI Gene

24127

			Length	Strain/Species	Flank
genomic	ENSMUSG00000032410	Ensembl Gene Model \| MGI Sequence Detail	103044	C57BL/6J	± kb
transcript	ENSMUST00000034981	Ensembl \| MGI Sequence Detail	5499	Not Applicable
polypeptide	ENSMUSP00000034981	Ensembl \| MGI Sequence Detail	1723	Not Applicable

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UniProt

5 Sequences
Protein Ontology

PR:000017511 5'-3' exoribonuclease 1

(term hierarchy)
EC

3.1.13.-
InterPro Domains

IPR027073 5'-3' exoribonuclease

IPR016494 5'-3' exoribonuclease 1

IPR040992 5'-3' exoribonuclease 1, D1 domain

IPR047007 5'-3' exoribonuclease 1, D1 domain superfamily

IPR041385 5'-3' exoribonuclease 1, SH3-like domain

IPR047008 5'-3' exoribonuclease 1, SH3-like domain superfamily

IPR041106 Exoribonuclease Xrn1, D2/D3 domain

IPR041412 Xrn1, helical domain

IPR004859 Xrn1, N-terminal
GlyGen

P97789 5 sites, 1 N-linked glycan (1 site), 1 O-linked glycan (4 sites)

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All nucleic 28

cDNA 28

Microarray probesets 3

Summaries

All 37

Developmental Gene Expression 2

Gene Ontology 8

Phenotypes 9
Earliest

J:39219 Bashkirov VI, et al., A mouse cytoplasmic exoribonuclease (mXRN1p) with preference for G4 tetraplex substrates. J Cell Biol. 1997 Feb 24;136(4):761-73
Latest

J:328765 Li L, et al., The XRN1-regulated RNA helicase activity of YTHDC2 ensures mouse fertility independently of m(6)A recognition. Mol Cell. 2022 May 5;82(9):1678-1690.e12

TSS for Xrn1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr86580	Chr9:95836797-95836836 (+)	4 bp
Tssr86581	Chr9:95836839-95836853 (+)	33 bp
Tssr86582	Chr9:95836873-95836896 (+)	72 bp
Tssr86583	Chr9:95837683-95837687 (+)	872 bp
Tssr86584	Chr9:95873053-95873064 (+)	36,246 bp
Tssr86585	Chr9:95925658-95925661 (+)	88,847 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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