EXOSC5 (exosome component 5) - Rat Genome Database

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Gene: EXOSC5 (exosome component 5) Canis lupus familiaris
Analyze
Symbol: EXOSC5
Name: exosome component 5
RGD ID: 12227047
Description: ENCODES a protein that exhibits RNA exonuclease activity (ortholog); INVOLVED IN defense response to virus (ortholog); mRNA catabolic process (ortholog); RNA catabolic process (ortholog); PARTICIPATES IN ribosome biogenesis pathway; ASSOCIATED WITH Carpenter Syndrome 2 (ortholog); CEREBELLAR ATAXIA, BRAIN ABNORMALITIES, AND CARDIAC CONDUCTION DEFECTS (ortholog); congenital hypoplastic anemia (ortholog); FOUND IN cytoplasmic exosome (RNase complex) (inferred); cytosol (inferred); euchromatin (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: exosome complex component RRP46; exosome complex exonuclease RRP46
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11112,599,519 - 112,609,039 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1112,599,568 - 112,608,941 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1112,003,688 - 112,013,191 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01113,197,626 - 113,207,142 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1113,197,681 - 113,207,142 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11112,758,901 - 112,768,414 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01112,391,242 - 112,400,741 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01113,384,512 - 113,394,031 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

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


Genomics

Comparative Map Data
EXOSC5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11112,599,519 - 112,609,039 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1112,599,568 - 112,608,941 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1112,003,688 - 112,013,191 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01113,197,626 - 113,207,142 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1113,197,681 - 113,207,142 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11112,758,901 - 112,768,414 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01112,391,242 - 112,400,741 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01113,384,512 - 113,394,031 (+)NCBIUU_Cfam_GSD_1.0
EXOSC5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381941,386,374 - 41,397,359 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1941,386,371 - 41,397,362 (-)EnsemblGRCh38hg38GRCh38
GRCh371941,892,279 - 41,903,264 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361946,584,115 - 46,595,096 (-)NCBINCBI36Build 36hg18NCBI36
Build 341946,584,117 - 46,595,096NCBI
Celera1938,692,141 - 38,703,112 (-)NCBICelera
Cytogenetic Map19q13.2NCBI
HuRef1938,324,120 - 38,334,980 (-)NCBIHuRef
CHM1_11941,891,952 - 41,902,933 (-)NCBICHM1_1
T2T-CHM13v2.01944,207,608 - 44,218,583 (-)NCBIT2T-CHM13v2.0
Exosc5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39725,358,578 - 25,367,457 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl725,358,589 - 25,370,793 (+)EnsemblGRCm39 Ensembl
GRCm38725,659,153 - 25,668,032 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl725,659,164 - 25,671,368 (+)EnsemblGRCm38mm10GRCm38
MGSCv37726,444,172 - 26,453,051 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36725,367,924 - 25,376,783 (+)NCBIMGSCv36mm8
Celera720,268,066 - 20,276,945 (+)NCBICelera
Cytogenetic Map7A3NCBI
cM Map713.96NCBI
Exosc5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8190,295,495 - 90,305,047 (+)NCBIGRCr8
mRatBN7.2181,168,128 - 81,177,266 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl181,166,023 - 81,177,265 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx186,560,317 - 86,569,455 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0195,111,967 - 95,121,064 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0188,316,112 - 88,325,250 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0182,452,104 - 82,461,607 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl182,452,469 - 82,461,606 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0183,713,699 - 83,723,115 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4180,871,353 - 80,876,329 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1180,945,194 - 80,954,345 (+)NCBI
Celera175,612,126 - 75,617,002 (+)NCBICelera
Cytogenetic Map1q21NCBI
Exosc5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955555326,698 - 334,106 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955555328,130 - 334,106 (-)NCBIChiLan1.0ChiLan1.0
EXOSC5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22047,596,801 - 47,608,176 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11949,465,676 - 49,477,046 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01938,379,884 - 38,391,309 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11946,886,320 - 46,897,703 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1946,886,326 - 46,897,703 (-)Ensemblpanpan1.1panPan2
Exosc5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934915,362,214 - 15,371,533 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366613,790,302 - 3,799,660 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366613,790,283 - 3,799,602 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EXOSC5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl649,373,379 - 49,382,034 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1649,373,378 - 49,381,875 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2645,166,381 - 45,273,449 (-)NCBISscrofa10.2Sscrofa10.2susScr3
EXOSC5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1635,705,683 - 35,717,354 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl635,705,177 - 35,717,398 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607313,942,361 - 13,954,037 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Exosc5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624907197,666 - 203,600 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624907197,666 - 203,595 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in EXOSC5
71 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium
Low 5 5 22 6 6 6 6 6 12 8 10 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000043366   ⟹   ENSCAFP00000039701
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1112,599,568 - 112,608,941 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000078843   ⟹   ENSCAFP00000050230
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1112,599,604 - 112,608,941 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845004130   ⟹   ENSCAFP00845003305
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1113,197,681 - 113,207,142 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845004142   ⟹   ENSCAFP00845003313
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1113,197,717 - 113,207,142 (+)Ensembl
RefSeq Acc Id: XM_038468064   ⟹   XP_038323992
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11112,758,901 - 112,768,414 (+)NCBI
RefSeq Acc Id: XM_038528801   ⟹   XP_038384729
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01113,384,512 - 113,394,031 (+)NCBI
RefSeq Acc Id: XM_038593074   ⟹   XP_038449002
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01112,391,242 - 112,400,741 (+)NCBI
RefSeq Acc Id: XM_038656891   ⟹   XP_038512819
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01113,197,626 - 113,207,142 (+)NCBI
RefSeq Acc Id: XM_847745   ⟹   XP_852838
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11112,599,519 - 112,609,039 (+)NCBI
Dog10K_Boxer_Tasha1112,003,688 - 112,013,191 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_852838   ⟸   XM_847745
- UniProtKB: A0A8C0KQV5 (UniProtKB/TrEMBL),   A0A8C0QQ59 (UniProtKB/TrEMBL),   A0A8I3MPC4 (UniProtKB/TrEMBL),   A0A8C0MBM4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000050230   ⟸   ENSCAFT00000078843
RefSeq Acc Id: ENSCAFP00000039701   ⟸   ENSCAFT00000043366
RefSeq Acc Id: XP_038323992   ⟸   XM_038468064
RefSeq Acc Id: XP_038449002   ⟸   XM_038593074
RefSeq Acc Id: XP_038512819   ⟸   XM_038656891
- UniProtKB: A0A8C0KQV5 (UniProtKB/TrEMBL),   A0A8C0QQ59 (UniProtKB/TrEMBL),   A0A8I3MPC4 (UniProtKB/TrEMBL),   A0A8C0MBM4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038384729   ⟸   XM_038528801
- UniProtKB: A0A8C0KQV5 (UniProtKB/TrEMBL),   A0A8C0MBM4 (UniProtKB/TrEMBL),   A0A8C0QQ59 (UniProtKB/TrEMBL),   A0A8I3MPC4 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845003313   ⟸   ENSCAFT00845004142
RefSeq Acc Id: ENSCAFP00845003305   ⟸   ENSCAFT00845004130
Protein Domains
Exoribonuclease phosphorolytic

Promoters
RGD ID:13682286
Promoter ID:EPDNEW_C352
Type:initiation region
Name:EXOSC5_1
Description:exosome component 5
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11112,599,509 - 112,599,569EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000032654 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030002904 UniProtKB/TrEMBL
  ENSCAFG00040008493 UniProtKB/TrEMBL
  ENSCAFG00845002337 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000043366.3 UniProtKB/TrEMBL
  ENSCAFT00000078843.2 UniProtKB/TrEMBL
  ENSCAFT00030005393.1 UniProtKB/TrEMBL
  ENSCAFT00040015898.1 UniProtKB/TrEMBL
  ENSCAFT00040015930.1 UniProtKB/TrEMBL
  ENSCAFT00845004130 ENTREZGENE
  ENSCAFT00845004130.1 UniProtKB/TrEMBL
  ENSCAFT00845004142.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.230.70 UniProtKB/TrEMBL
InterPro ExoRNase_PH_dom1 UniProtKB/TrEMBL
  ExoRNase_PH_dom2 UniProtKB/TrEMBL
  ExoRNase_PH_dom2_sf UniProtKB/TrEMBL
  PNPase/RNase_PH_dom_sf UniProtKB/TrEMBL
  Ribosomal_S5_D2-typ_fold UniProtKB/TrEMBL
KEGG Report cfa:611350 UniProtKB/TrEMBL
NCBI Gene EXOSC5 ENTREZGENE
PANTHER EXOSOME COMPLEX COMPONENT UniProtKB/TrEMBL
  EXOSOME COMPLEX COMPONENT RRP46 UniProtKB/TrEMBL
Pfam RNase_PH UniProtKB/TrEMBL
  RNase_PH_C UniProtKB/TrEMBL
Superfamily-SCOP SSF54211 UniProtKB/TrEMBL
  SSF55666 UniProtKB/TrEMBL
UniProt A0A8C0KQV5 ENTREZGENE
  A0A8C0MBM4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0QMF8_CANLF UniProtKB/TrEMBL
  A0A8C0QQ59 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MMR4_CANLF UniProtKB/TrEMBL
  A0A8I3MPC4 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:40526 ENTREZGENE