Xrn2 (5'-3' exoribonuclease 2) - Rat Genome Database

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Gene: Xrn2 (5'-3' exoribonuclease 2) Ictidomys tridecemlineatus
Analyze
Symbol: Xrn2
Name: 5'-3' exoribonuclease 2
RGD ID: 12517425
Description: ENCODES a protein that exhibits 3'-5'-RNA exonuclease activity (ortholog); INVOLVED IN hippocampus development (ortholog); neuron differentiation (ortholog); retina development in camera-type eye (ortholog); PARTICIPATES IN 3'-end pre-mRNA processing pathway; ribosome biogenesis pathway; RNA polymerase II transcription termination pathway; ASSOCIATED WITH adenoid cystic carcinoma (ortholog); familial hyperinsulinemic hypoglycemia 1 (ortholog); leiomyosarcoma (ortholog); FOUND IN aggresome (inferred); nucleolus (inferred); nucleoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640150,649,492 - 150,724,750 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366204,069,934 - 4,145,745 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366204,069,956 - 4,145,212 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
aggresome  (IEA)
nucleolus  (IEA)
nucleoplasm  (IEA)
nucleus  (IEA)

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Xrn2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640150,649,492 - 150,724,750 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366204,069,934 - 4,145,745 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366204,069,956 - 4,145,212 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
XRN2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382021,303,331 - 21,389,825 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2021,303,331 - 21,389,825 (+)EnsemblGRCh38hg38GRCh38
GRCh372021,283,969 - 21,370,463 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362021,231,942 - 21,318,463 (+)NCBINCBI36Build 36hg18NCBI36
Build 342021,231,941 - 21,318,463NCBI
Celera2021,360,521 - 21,444,351 (+)NCBICelera
Cytogenetic Map20p11.22NCBI
HuRef2021,248,976 - 21,332,731 (+)NCBIHuRef
CHM1_12021,284,715 - 21,370,457 (+)NCBICHM1_1
T2T-CHM13v2.02021,362,698 - 21,446,483 (+)NCBIT2T-CHM13v2.0
Xrn2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392146,854,672 - 146,919,922 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2146,854,916 - 146,919,920 (+)EnsemblGRCm39 Ensembl
GRCm382147,012,755 - 147,078,000 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2147,012,996 - 147,078,000 (+)EnsemblGRCm38mm10GRCm38
MGSCv372146,838,796 - 146,903,736 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362146,704,563 - 146,766,521 (+)NCBIMGSCv36mm8
Celera2148,268,335 - 148,333,354 (+)NCBICelera
Cytogenetic Map2G2NCBI
cM Map272.63NCBI
Xrn2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83154,888,558 - 154,962,519 (+)NCBIGRCr8
mRatBN7.23134,436,916 - 134,509,308 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3134,437,109 - 134,509,306 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3138,350,638 - 138,422,835 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03146,934,742 - 147,006,929 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03144,637,900 - 144,710,092 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03141,224,858 - 141,298,272 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3141,225,290 - 141,298,265 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03147,641,256 - 147,716,287 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43135,651,059 - 135,724,442 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13135,541,370 - 135,629,673 (+)NCBI
Celera3133,299,770 - 133,372,470 (+)NCBICelera
Cytogenetic Map3q41NCBI
Xrn2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541529,107,034 - 29,175,538 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541529,107,060 - 29,175,374 (+)NCBIChiLan1.0ChiLan1.0
XRN2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22122,192,379 - 22,278,708 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12022,188,948 - 22,275,544 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02021,260,871 - 21,347,430 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12021,222,138 - 21,308,561 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2021,222,138 - 21,308,561 (+)Ensemblpanpan1.1panPan2
XRN2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1242,042,521 - 2,128,942 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl242,042,888 - 2,128,867 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha242,070,749 - 2,157,181 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0242,449,943 - 2,536,442 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl242,449,949 - 2,536,432 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1242,046,962 - 2,133,487 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0242,150,331 - 2,236,452 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0242,427,267 - 2,513,473 (-)NCBIUU_Cfam_GSD_1.0
XRN2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1729,107,667 - 29,193,479 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11729,107,641 - 29,193,500 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21733,060,057 - 33,145,974 (+)NCBISscrofa10.2Sscrofa10.2susScr3
XRN2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1250,287,718 - 50,373,869 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl250,288,073 - 50,373,883 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660785,086,667 - 5,173,118 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Xrn2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474121,691,199 - 21,767,790 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474121,691,099 - 21,768,267 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSSTOT00000000593   ⟹   ENSSTOP00000000539
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049366204,069,934 - 4,145,745 (-)Ensembl
RefSeq Acc Id: XM_005334610   ⟹   XP_005334667
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640150,649,496 - 150,724,749 (-)NCBI
SpeTri2.0NW_0049366204,069,956 - 4,145,212 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040273875   ⟹   XP_040129809
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640150,649,492 - 150,724,750 (-)NCBI
RefSeq Acc Id: XM_040273876   ⟹   XP_040129810
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640150,649,496 - 150,724,342 (-)NCBI
RefSeq Acc Id: XM_040273877   ⟹   XP_040129811
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640150,649,492 - 150,701,258 (-)NCBI
Protein Sequences
Protein RefSeqs XP_005334667 (Get FASTA)   NCBI Sequence Viewer  
  XP_040129809 (Get FASTA)   NCBI Sequence Viewer  
  XP_040129810 (Get FASTA)   NCBI Sequence Viewer  
  XP_040129811 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000000539.3
GenBank Protein KAG3262763 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_005334667   ⟸   XM_005334610
- Peptide Label: isoform X1
- UniProtKB: I3LWZ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040129809   ⟸   XM_040273875
- Peptide Label: isoform X2
RefSeq Acc Id: XP_040129811   ⟸   XM_040273877
- Peptide Label: isoform X4
RefSeq Acc Id: XP_040129810   ⟸   XM_040273876
- Peptide Label: isoform X3
Ensembl Acc Id: ENSSTOP00000000539   ⟸   ENSSTOT00000000593
Protein Domains
Xrn1 helical   Xrn1 N-terminal


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000000589 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000000593.3 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.1050 UniProtKB/TrEMBL
  3.40.50.12390 UniProtKB/TrEMBL
InterPro 5_3_exoribonuclease UniProtKB/TrEMBL
  Put_53exo UniProtKB/TrEMBL
  Xrn1_helical UniProtKB/TrEMBL
  Xrn2/3/4 UniProtKB/TrEMBL
NCBI Gene Xrn2 ENTREZGENE
PANTHER 5'-3' EXORIBONUCLEASE 2 UniProtKB/TrEMBL
  PTHR12341 UniProtKB/TrEMBL
Pfam XRN_M UniProtKB/TrEMBL
  XRN_N UniProtKB/TrEMBL
PIRSF Exonuclease_Xrn2 UniProtKB/TrEMBL
UniProt I3LWZ8 ENTREZGENE, UniProtKB/TrEMBL