Exosc1 (exosome component 1) - Rat Genome Database

Name: Exosc1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Exosc1 (exosome component 1) Ictidomys tridecemlineatus

Analyze

Symbol:

Exosc1

Name:

exosome component 1

RGD ID:

12566887

Description:

ENCODES a protein that exhibits RNA exonuclease activity (ortholog); INVOLVED IN RNA catabolic process (inferred); RNA processing (inferred); ASSOCIATED WITH pontocerebellar hypoplasia type 1F (ortholog); FOUND IN cytoplasm (inferred); cytosol (inferred); exosome (RNase complex) (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

exosome complex component CSL4; exosome component 1, transcript variant X1; exosome component 1, transcript variant X2

RGD Orthologs

Alliance Orthologs

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):	EXOSC1 (exosome component 1)	NCBI	Ortholog
Mus musculus (house mouse):	Exosc1 (exosome component 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Exosc1 (exosome component 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Exosc1 (exosome component 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	EXOSC1 (exosome component 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	EXOSC1 (exosome component 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	EXOSC1 (exosome component 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	EXOSC1 (exosome component 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Exosc1 (exosome component 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024407213	36,191,538 - 36,199,489 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936636	2,230,737 - 2,238,135 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936636	2,230,712 - 2,237,401 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

pontocerebellar hypoplasia type 1F (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

RNA catabolic process (IEA)

RNA processing (IEA)

Cellular Component

cytoplasm (IEA)

cytosol (IEA)

exosome (RNase complex) (IEA)

nuclear exosome (RNase complex) (IEA)

nucleolus (IEA)

nucleus (IEA)

Molecular Function

protein binding (ISO)

RNA binding (IEA)

RNA exonuclease activity (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Exosc1
(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_024407213	36,191,538 - 36,199,489 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936636	2,230,737 - 2,238,135 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936636	2,230,712 - 2,237,401 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

EXOSC1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	10	97,435,909 - 97,446,006 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	10	97,435,909 - 97,446,017 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	10	99,195,666 - 99,205,763 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	99,185,656 - 99,195,758 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	10	99,181,068 - 99,195,741	NCBI
Celera	10	92,903,619 - 92,943,824 (-)	NCBI		Celera
Cytogenetic Map	10	q24.1	NCBI
HuRef	10	92,821,320 - 92,831,424 (-)	NCBI		HuRef
CHM1_1	10	99,477,406 - 99,487,508 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	10	98,316,090 - 98,326,186 (-)	NCBI		T2T-CHM13v2.0

Exosc1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	19	41,911,417 - 41,921,836 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	19	41,910,731 - 41,921,862 (-)	Ensembl		GRCm39 Ensembl
GRCm38	19	41,922,978 - 41,933,423 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	19	41,922,292 - 41,933,423 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	19	41,997,470 - 42,007,804 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	19	41,977,030 - 41,986,605 (-)	NCBI		MGSCv36	mm8
Celera	19	42,724,141 - 42,734,563 (-)	NCBI		Celera
Cytogenetic Map	19	C3	NCBI
cM Map	19	35.46	NCBI

Exosc1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	250,684,746 - 250,694,748 (-)	NCBI		GRCr8
mRatBN7.2	1	240,734,777 - 240,745,431 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	240,734,773 - 240,745,438 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	248,880,748 - 248,890,754 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	255,577,896 - 255,587,900 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	248,230,907 - 248,240,911 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	261,169,798 - 261,179,865 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	261,170,229 - 261,179,790 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	268,621,714 - 268,632,337 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	1	236,570,459 - 236,580,516 (-)	NCBI		Celera
Cytogenetic Map	1	q54	NCBI

Exosc1
(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_004955507	3,576,555 - 3,583,183 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955507	3,576,555 - 3,583,183 (-)	NCBI	ChiLan1.0	ChiLan1.0

EXOSC1
(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	8	109,350,417 - 109,360,407 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	10	109,355,835 - 109,365,726 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	10	94,058,794 - 94,068,776 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	10	97,552,667 - 97,562,253 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	97,552,874 - 97,562,233 (-)	Ensembl	panpan1.1		panPan2

EXOSC1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	28	10,729,186 - 10,738,978 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	28	10,731,243 - 10,738,900 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	28	10,911,886 - 10,921,678 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	28	11,051,515 - 11,061,308 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	28	11,050,820 - 11,061,552 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	28	10,712,577 - 10,722,369 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	28	10,773,099 - 10,782,899 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	28	10,913,284 - 10,923,076 (-)	NCBI		UU_Cfam_GSD_1.0

EXOSC1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	108,830,906 - 108,842,780 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	108,834,609 - 108,842,827 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	118,340,140 - 118,346,779 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

EXOSC1
(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	9	90,603,371 - 90,615,934 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	9	90,602,667 - 90,615,840 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666048	51,503,258 - 51,513,397 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Exosc1
(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_female_1.0 Ensembl	NW_004624737	9,101,483 - 9,107,336 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624737	9,099,752 - 9,107,393 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005335270	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_021733209	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010002273	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSTOT00000006598 ⟹ ENSSTOP00000005898

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936636	2,230,755 - 2,237,072 (+)	Ensembl

RefSeq Acc Id:

ENSSTOT00000041729 ⟹ ENSSTOP00000028464

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936636	2,230,737 - 2,238,135 (+)	Ensembl

RefSeq Acc Id:

XM_005335270 ⟹ XP_005335327

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024407213	36,191,538 - 36,199,489 (+)	NCBI
SpeTri2.0	NW_004936636	2,230,712 - 2,237,401 (+)	NCBI

Sequence:

show sequence

GGAATCGGCTCCGTTACATCCGGGCTCTACAACAGTGGCAGTCATGGCGCCACCCGTGAGATAT
TGCATCCCTGGCGAACGTCTGTGCAATTTGGAGGAGGGCAGCCCTGGCAGCGGCACCTATACCC
GGCACGGCTACATCTTTTCGTCGCTTGCGGGCTGCCTGACGAAGAGCAGCGAGAACGGCGCGCT
TCCTGTGGTGTCTGTGATGAGAGAAACAGAGTCCCAATTACTTCCAGATGTGGGAACTATTGTA
ACCTGTAAGGTCTCTAGCATCAATTCACGCTTTGCCAAAGTGCACATCCTATATGTGGGGTCCA
CACCACTTAAGAACTCCTTTCGAGGAACTATCAGAAAGGAAGATGTCCGAGCAACTGAAAAAGA
CAAGGTTGAAATTTATAAGAGTTTCCGCCCAGGTGACATTGTTTTGGCCAAAGTGATCTCTTTA
GGTGATGCACAGTCCAACTATCTGCTGACCACTGCCGAAAATGAGCTGGGAGTGGTGGTGGCCC
ACAGTGAATCAGGTGTCCAGATGGTTCCCATCAGTTGGTGTGAGATGCAGTGTCCTAAGACCCA
CACTAAAGAATTCCGGAAAGTGGCTAGAGTTCAGCCTGAATTTTTGCAGACCTAAGATGCTGCA
TATTACCCCATGGAGGGGGTAAGCTATTTCCAAGAGTATGTGATGAAAATAACATCAAGATGCC
ATGGTCTTTATTCAGATACCTGGGGTCAGCCAATGACCACCTCTAGAAAAATCTGCCAGTAATT
TATATAGGTGGAACATAATTTTTGTGAACCTTTTAGTAAATTGGATTCTTGAGGATAAAGCTTC
TCTTAGGGGGATACCAACAAACTGTAACTTTGGAGGTAGCCTGATAGGCCTTTTAAGTATATAT
TTTTTGCTGTGACAAAGAAAACATTTTTATTAAAAAGATTTTATGGTTTCTGTTGTCTTGAACA

hide sequence

RefSeq Acc Id:

XM_021733209 ⟹ XP_021588884

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024407213	36,195,116 - 36,199,489 (+)	NCBI
SpeTri2.0	NW_004936636	2,234,232 - 2,237,401 (+)	NCBI

Sequence:

show sequence

ATGTGGGGTCCACACCACTTAAGAACTCCTTTCGAGGAACTATCAGAAAGGAAGATGTCCGAGC
AACTGAAAAAGACAAGGTTGTTGGTTGAAATTTATAAGAGTTTCCGCCCAGGTGACATTGTTTT
GGCCAAAGTGATCTCTTTAGGTGATGCACAGTCCAACTATCTGCTGACCACTGCCGAAAATGAG
CTGGGAGTGGTGGTGGCCCACAGTGAATCAGGTGTCCAGATGGTTCCCATCAGTTGGTGTGAGA
TGCAGTGTCCTAAGACCCACACTAAAGAATTCCGGAAAGTGGCTAGAGTTCAGCCTGAATTTTT
GCAGACCTAAGATGCTGCATATTACCCCATGGAGGGGGTAAGCTATTTCCAAGAGTATGTGATG
AAAATAACATCAAGATGCCATGGTCTTTATTCAGATACCTGGGGTCAGCCAATGACCACCTCTA
GAAAAATCTGCCAGTAATTTATATAGGTGGAACATAATTTTTGTGAACCTTTTAGTAAATTGGA
TTCTTGAGGATAAAGCTTCTCTTAGGGGGATACCAACAAACTGTAACTTTGGAGGTAGCCTGAT
AGGCCTTTTAAGTATATATTTTTTGCTGTGACAAAGAAAACATTTTTATTAAAAAGATTTTATG
GTTTCTGTTGTCTTGAACA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005335327	(Get FASTA)	NCBI Sequence Viewer
	XP_021588884	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000005898.3
	ENSSTOP00000028464.1
GenBank Protein	KAG3264358	(Get FASTA)	NCBI Sequence Viewer
	KAG3264359	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_005335327 ⟸ XM_005335270
- Peptide Label:	isoform X1
- UniProtKB:	A0A287D4L2 (UniProtKB/TrEMBL)
- Sequence:	show sequence MAPPVRYCIPGERLCNLEEGSPGSGTYTRHGYIFSSLAGCLTKSSENGALPVVSVMRETESQLL PDVGTIVTCKVSSINSRFAKVHILYVGSTPLKNSFRGTIRKEDVRATEKDKVEIYKSFRPGDIV LAKVISLGDAQSNYLLTTAENELGVVVAHSESGVQMVPISWCEMQCPKTHTKEFRKVARVQPEF LQT hide sequence

RefSeq Acc Id:	XP_021588884 ⟸ XM_021733209
- Peptide Label:	isoform X2
- Sequence:	show sequence MWGPHHLRTPFEELSERKMSEQLKKTRLLVEIYKSFRPGDIVLAKVISLGDAQSNYLLTTAENE LGVVVAHSESGVQMVPISWCEMQCPKTHTKEFRKVARVQPEFLQT hide sequence

RefSeq Acc Id:

ENSSTOP00000005898 ⟸ ENSSTOT00000006598

RefSeq Acc Id:

ENSSTOP00000028464 ⟸ ENSSTOT00000041729

Protein Domains

Exosome complex component N-terminal S1 motif

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000006615	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000006598.3	UniProtKB/TrEMBL
	ENSSTOT00000041729.1	UniProtKB/TrEMBL
Gene3D-CATH	2.40.50.100	UniProtKB/TrEMBL
	2.40.50.140	UniProtKB/TrEMBL
InterPro	Csl4	UniProtKB/TrEMBL
	EXOSC1_C	UniProtKB/TrEMBL
	Exosome_cplx_N_dom	UniProtKB/TrEMBL
	NA-bd_OB-fold	UniProtKB/TrEMBL
	S1_domain	UniProtKB/TrEMBL
NCBI Gene	Exosc1	ENTREZGENE
PANTHER	EXOSOME COMPLEX COMPONENT CSL4	UniProtKB/TrEMBL
	PTHR12686	UniProtKB/TrEMBL
Pfam	ECR1_N	UniProtKB/TrEMBL
	EXOSC1	UniProtKB/TrEMBL
SMART	SM00316	UniProtKB/TrEMBL
Superfamily-SCOP	Ribosomal L27 protein-like	UniProtKB/TrEMBL
	SSF50249	UniProtKB/TrEMBL
UniProt	A0A287D4L2	ENTREZGENE, UniProtKB/TrEMBL
	I3M874_ICTTR	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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