Exosc9 (exosome component 9) - Rat Genome Database

Name: Exosc9
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Exosc9 (exosome component 9) Chinchilla lanigera

Analyze

Symbol:

Exosc9

Name:

exosome component 9

RGD ID:

8983196

Description:

ENCODES a protein that exhibits mRNA 3'-UTR AU-rich region binding (ortholog); RNA exonuclease activity (ortholog); RNA polymerase II-specific DNA-binding transcription factor binding (ortholog); INVOLVED IN nuclear mRNA surveillance (ortholog); nuclear polyadenylation-dependent rRNA catabolic process (ortholog); nuclear-transcribed mRNA catabolic process (ortholog); ASSOCIATED WITH genetic disease (ortholog); neurodevelopmental disorder with hearing loss, seizures, and brain abnormalities (ortholog); Neurodevelopmental Disorders (ortholog); FOUND IN cytoplasm (ortholog); cytosol (ortholog); exosome (RNase complex) (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

exosome complex component RRP45

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	EXOSC9 (exosome component 9)	NCBI	Ortholog
Mus musculus (house mouse):	Exosc9 (exosome component 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Exosc9 (exosome component 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	EXOSC9 (exosome component 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	EXOSC9 (exosome component 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Exosc9 (exosome component 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	EXOSC9 (exosome component 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	EXOSC9 (exosome component 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Exosc9 (exosome component 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955428	18,731,919 - 18,743,756 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955428	18,732,733 - 18,743,743 (-)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

neurodevelopmental disorder with hearing loss, seizures, and brain abnormalities (ISO)

Neurodevelopmental Disorders (ISO)

pontocerebellar hypoplasia type 1D (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

nuclear mRNA surveillance (ISO)

nuclear polyadenylation-dependent rRNA catabolic process (ISO)

nuclear-transcribed mRNA catabolic process (ISO)

obsolete exonucleolytic catabolism of deadenylated mRNA (ISO)

positive regulation of cell growth (ISO)

positive regulation of transcription by RNA polymerase II (ISO)

RNA catabolic process (ISO)

RNA processing (ISO)

Cellular Component

cytoplasm (ISO)

cytosol (ISO)

exosome (RNase complex) (ISO)

nuclear chromosome (ISO)

nuclear exosome (RNase complex) (ISO)

nucleolus (ISO)

nucleoplasm (ISO)

nucleus (ISO)

Molecular Function

mRNA 3'-UTR AU-rich region binding (ISO)

protein binding (ISO)

RNA exonuclease activity (ISO)

RNA polymerase II-specific DNA-binding transcription factor binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

Exosc9
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955428	18,731,919 - 18,743,756 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955428	18,732,733 - 18,743,743 (-)	NCBI	ChiLan1.0	ChiLan1.0

EXOSC9
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	4	121,801,323 - 121,817,021 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	4	121,801,318 - 121,817,021 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	4	122,722,478 - 122,738,176 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	4	122,941,922 - 122,957,626 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	4	123,080,352 - 123,095,671	NCBI
Celera	4	120,108,304 - 120,123,992 (+)	NCBI		Celera
Cytogenetic Map	4	q27	NCBI
HuRef	4	118,449,173 - 118,464,860 (+)	NCBI		HuRef
CHM1_1	4	122,698,937 - 122,714,644 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	4	125,105,375 - 125,121,073 (+)	NCBI		T2T-CHM13v2.0

Exosc9
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	3	36,606,755 - 36,619,876 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	3	36,606,755 - 36,619,876 (+)	Ensembl		GRCm39 Ensembl
GRCm38	3	36,552,606 - 36,565,727 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	3	36,552,606 - 36,565,727 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	3	36,451,528 - 36,464,649 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	3	36,744,192 - 36,757,276 (+)	NCBI		MGSCv36	mm8
MGSCv36	3	36,432,740 - 36,445,963 (+)	NCBI		MGSCv36	mm8
Celera	3	36,436,372 - 36,449,916 (+)	NCBI		Celera
Cytogenetic Map	3	B	NCBI
cM Map	3	17.6	NCBI

Exosc9
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	2	121,344,154 - 121,355,110 (+)	NCBI		GRCr8
mRatBN7.2	2	119,416,028 - 119,426,981 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	2	119,388,715 - 119,427,051 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	2	125,970,707 - 125,981,611 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	2	124,083,202 - 124,094,106 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	2	118,712,198 - 118,723,102 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	2	123,264,679 - 123,275,623 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	123,264,694 - 123,294,880 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	2	142,879,824 - 142,890,726 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	123,051,592 - 123,062,494 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	2	122,996,553 - 123,007,456 (+)	NCBI
Celera	2	114,373,963 - 114,384,865 (+)	NCBI		Celera
Cytogenetic Map	2	q25	NCBI

EXOSC9
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	3	119,597,430 - 119,613,043 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	4	119,866,544 - 119,882,165 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	4	114,001,770 - 114,017,395 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	4	125,138,668 - 125,154,288 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	4	125,138,668 - 125,154,288 (+)	Ensembl	panpan1.1		panPan2

EXOSC9
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	19	18,324,117 - 18,336,628 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	19	18,324,119 - 18,336,602 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	19	18,541,022 - 18,553,425 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	19	18,442,469 - 18,454,948 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	19	18,442,488 - 18,454,924 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	19	18,393,585 - 18,405,995 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	19	18,675,267 - 18,687,668 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	19	19,151,035 - 19,163,547 (-)	NCBI		UU_Cfam_GSD_1.0

Exosc9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405301	66,046,357 - 66,057,347 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936662	1,062,527 - 1,074,772 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936662	1,062,461 - 1,073,425 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

EXOSC9
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	8	102,264,470 - 102,278,164 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	8	102,265,656 - 102,278,179 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	8	109,461,158 - 109,532,479 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

EXOSC9
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	7	69,077,227 - 69,092,867 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	7	69,077,164 - 69,092,810 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666037	48,038,370 - 48,054,028 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Exosc9
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624777	2,087,005 - 2,097,473 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005386784	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01028069	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDI01225849	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000006696 ⟹ ENSCLAP00000006587

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955428	18,731,919 - 18,743,756 (-)	Ensembl

RefSeq Acc Id:

XM_005386784 ⟹ XP_005386841

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955428	18,732,733 - 18,743,743 (-)	NCBI

Sequence:

show sequence

CCCATGACGCAAATCTTCCGCGACGCCCGGCGAGGTGGGCACGCCGGAGGAGGGTCAGGTCTCC
GTTGCCCAAGGCCTCTGGTGCCCCGGGGACCCGTGACCCGACAGCATGAAGGAAACGCCACTCT
CGAACTGTGAGCGCCGCTTCCTGCTCCGCGCCATCGAAGAAAAGAAGCGGCTGGATGGTCGACA
GACCTATGATTACAGGAACATCAAGATCTCGTTTGGAACTGATTACGGGTGCTGCATTGTGGAA
CTTGGAAAAACAAGAGTTCTTGGGCAGGTTTCCTGTGAACTTGTTGCTCCAAAACTGAATAGAG
CGACAGAAGGTATTCTTTTCTTTAACCTTGAACTCTCTCAGATGGCTGCTCCAGCGTTTGAACC
TGGCAGGCAGTCAGATCTCTTGGTGAAGCTGAATCGACTCCTGGAAAGATGTCTAAGAAATTCG
AAGTGTATTGACACTGAATCTCTCTGTGTTGTTGCTGGTGAAAAGGTTTGGCAAATACGTGTGG
ACCTACACTTATTAAATCATGATGGAAATATTATTGATGCTGCCAGCATTGCTGCAATTGTGGC
CTTATGTCACTTCCGCAGACCTGATGTCTCTGTCCAAGGAGAAGAAGTCACACTGTATACACCT
GAAGAGCGTGACCCTGTAGCACTGAGCATCCACCACATGCCAATTTGCGTCAGTTTTGCCTTTT
TTCAGCAAGGAACATACTTATTGGTGGATCCCAATGAACGAGAAGAACGTGTAATGGATGGCTT
GCTGGTGATTGCCATGAACAAGCATCGAGAGATCTGTACCATCCAGTCCAGTGGCGGAATAATG
CTACTGAAAGATCAGGTTTTGAGATGCAGTAAAATAGCTGGTGTAAAAGTAGCAGAAATTACAG
AGCTTATACAGAAAGCTTTGGAGAATGACCAGAAAGTGAGGAAAGAAGGTGGAAAGTTCGGCTT
TGCAGAATCTATAGCAGATCAGAGGATCACAACATTTAAAATGGAAAAAGCCCCCATTGATACT
TCTGACGTTGAGGAGAAAGCAGAAGAAATCATTGCTGAAGCTGAACCTCCTTCAGAAGTTGTTT
CTAAACCTGTTCTCTGGACCTCTGGAACTGCCCAGATTGGAGAGGGAATAGAAAACTCCTGGGG
TGATCTTGAAGACTCTGAGAAAGATGATGACGATGAAGGTGGCAGTGATGAAGCTGTCATTCTT
GACAGTGTGAAAATGGACACTGGAGTAGAAGTTTCTGATATTGGAAGCCAAGATGCCCCAATAG
TACTCTCAGATAGTGAAGAAGAAGAAATGATCATTTTAGAACCAGACAAGAACCCAAAGAAAAT
AAGAACACAGATCGCCTGTACAAAACAAGAAAAAGCACCAAGTAAGAAGGCAGTGAAAAAGAGA
AAAAAGAAGAGAACTACTAACTAAGTCTTACATAGTTGTATGGATGTATATATAACTATTAAAA
GGATATTTATTCAGTGTTAACAATGA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005386841	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000006587
	ENSCLAP00000006587.1

RefSeq Acc Id:

XP_005386841 ⟸ XM_005386784

- UniProtKB:

A0A8C2YL34 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MKETPLSNCERRFLLRAIEEKKRLDGRQTYDYRNIKISFGTDYGCCIVELGKTRVLGQVSCELV
APKLNRATEGILFFNLELSQMAAPAFEPGRQSDLLVKLNRLLERCLRNSKCIDTESLCVVAGEK
VWQIRVDLHLLNHDGNIIDAASIAAIVALCHFRRPDVSVQGEEVTLYTPEERDPVALSIHHMPI
CVSFAFFQQGTYLLVDPNEREERVMDGLLVIAMNKHREICTIQSSGGIMLLKDQVLRCSKIAGV
KVAEITELIQKALENDQKVRKEGGKFGFAESIADQRITTFKMEKAPIDTSDVEEKAEEIIAEAE
PPSEVVSKPVLWTSGTAQIGEGIENSWGDLEDSEKDDDDEGGSDEAVILDSVKMDTGVEVSDIG
SQDAPIVLSDSEEEEMIILEPDKNPKKIRTQIACTKQEKAPSKKAVKKRKKKRTTN

hide sequence

RefSeq Acc Id:

ENSCLAP00000006587 ⟸ ENSCLAT00000006696

Protein Domains

Exoribonuclease phosphorolytic

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000004644	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000006696	ENTREZGENE
	ENSCLAT00000006696.1	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
	Rrp45	UniProtKB/TrEMBL
NCBI Gene	Exosc9	ENTREZGENE
PANTHER	EXOSOME COMPLEX COMPONENT RRP45	UniProtKB/TrEMBL
	EXOSOME COMPLEX EXONUCLEASE RIBOSOMAL RNA PROCESSING PROTEIN	UniProtKB/TrEMBL
Pfam	RNase_PH	UniProtKB/TrEMBL
	RNase_PH_C	UniProtKB/TrEMBL
Superfamily-SCOP	SSF54211	UniProtKB/TrEMBL
	SSF55666	UniProtKB/TrEMBL
UniProt	A0A8C2YL34	ENTREZGENE, UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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