UBC (ubiquitin C) - Rat Genome Database

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

Gene: UBC (ubiquitin C) Chlorocebus sabaeus

Analyze

Symbol:

UBC

Name:

ubiquitin C

RGD ID:

18392508

Description:

ASSOCIATED WITH COVID-19 (ortholog); genetic disease (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

polyubiquitin-C

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):	UBC (ubiquitin C)	NCBI	Ortholog
Mus musculus (house mouse):	Ubc (ubiquitin C)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Ubc (ubiquitin C)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	UBC (ubiquitin C)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	UBC (ubiquitin C)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ubc (ubiquitin C)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	UBC (ubiquitin C)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

ChlSab1.1 - Green Monkey 1.1 Assembly

Position:

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	11	120,277,855 - 120,279,553 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666037	125,003,711 - 125,007,003 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

COVID-19 (ISO)

genetic disease (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Molecular Function

protein binding (ISO)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

UBC
(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	11	120,277,855 - 120,279,553 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666037	125,003,711 - 125,007,003 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

UBC
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	12	124,911,646 - 124,914,650 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	12	124,911,604 - 124,917,368 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	12	125,396,192 - 125,399,196 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	12	123,962,145 - 123,965,530 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	12	123,921,073 - 123,924,077	NCBI
Celera	12	124,997,873 - 125,000,802 (-)	NCBI		Celera
Cytogenetic Map	12	q24.31	NCBI
HuRef	12	122,358,235 - 122,361,174 (-)	NCBI		HuRef
CHM1_1	12	125,217,624 - 125,221,019 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	12	124,916,854 - 124,919,858 (-)	NCBI		T2T-CHM13v2.0

Ubc
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	125,463,029 - 125,467,081 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	125,463,029 - 125,467,266 (-)	Ensembl		GRCm39 Ensembl
GRCm38	5	125,385,965 - 125,390,017 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	125,385,965 - 125,390,202 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	125,866,335 - 125,870,387 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	5	125,675,482 - 125,679,691 (-)	NCBI		MGSCv36	mm8
Celera	5	122,405,521 - 122,411,999 (-)	NCBI		Celera
Cytogenetic Map	5	G1.1	NCBI
cM Map	5	64.18	NCBI

Ubc
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	12	36,899,673 - 36,905,275 (+)	NCBI		GRCr8
mRatBN7.2	12	31,239,149 - 31,243,924 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	31,239,152 - 31,243,925 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	12	32,412,823 - 32,415,121 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	12	33,024,248 - 33,026,546 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	12	32,076,179 - 32,078,249 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	12	36,638,457 - 36,642,734 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	36,638,457 - 36,642,734 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	12	38,515,117 - 38,520,066 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	32,333,211 - 32,337,944 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	12	32,196,598 - 32,201,332 (+)	NCBI
Celera	12	32,933,657 - 32,936,338 (+)	NCBI		Celera
Cytogenetic Map	12	q15	NCBI

UBC
(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	10	132,995,718 - 132,999,939 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	12	132,992,096 - 132,998,965 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	12	122,502,868 - 122,507,101 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	12	126,789,228 - 126,793,343 (-)	NCBI	panpan1.1	PanPan1.1	panPan2

UBC
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	26	5,006,375 - 5,008,570 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	26	5,165,853 - 5,168,506 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	26	5,251,876 - 5,254,989 (+)	NCBI		ROS_Cfam_1.0
UMICH_Zoey_3.1	26	5,186,495 - 5,189,830 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	26	5,278,119 - 5,281,494 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	26	5,230,046 - 5,233,383 (+)	NCBI		UU_Cfam_GSD_1.0

Ubc
(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_024405118	159,015,205 - 159,018,452 (-)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936558	461,033 - 464,222 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

UBC
(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	28,257,027 - 28,263,044 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	28,253,857 - 28,260,771 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	29,958,861 - 29,961,533 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3
Pig Cytomap	14	q12-q15	NCBI

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

	endocrine system	hemolymphoid system	nervous system
High	36	8	50
Medium		12	10
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_008005182	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JACDXN010000005	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

XM_008005182 ⟹ XP_008003373

Type:

CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
ChlSab1.1	11	120,277,855 - 120,279,553 (-)	NCBI
Vero_WHO_p1.0	NW_023666037	125,003,711 - 125,007,003 (+)	NCBI

Sequence:

show sequence

TGAACGCCGATGACTATATAAGGACGCGCCGGGTGTGGCGCAGCCAGTTCCGTCGTAGCCGGGA
GTGGGATCGCAGTTCTTGTTTGTGTGTCGGTGTCATCGCCACTTGACAATGCAGATCTTCGTGA
AGACTCTGACTGGCAAGACCATCACCCTTGAGGTTGAGCCCAGTGACACCATCGAAAATGTCAA
GGCAAAGATCCAGGACAAGGAAGGCATTCCTCCCGACCAGCAGAGGCTGATCTTTGCCGGAAAG
CAGCTGGAAGATGGGCGCACCCTGTCTGACTACAACATCCAGAAAGAGTCCACCCTGCACTTGG
TGCTCCGCCTCAGAGGTGGGATGCAGATCTTCGTGAAGACCCTGACTGGCAAGACCATCACCCT
CGAGGTGGAGCCCAGTGACACCATCGAGAATGTCAAGGCAAAGATCCAGGATAAGGAAGGCATC
CCTCCTGACCAACAGAGGTTGATCTTTGCTGGAAAACAGCTGGAAGATGGGCGCACCCTGTCTG
ACTACAACATCCAGAAAGAGTCCACCCTGCACCTGGTGCTCCGCCTCAGAGGTGGGATGCAGAT
CTTCGTGAAGACCCTGACTGGCAAGACCATCACCCTCGAGGTGGAGCCCAGCGACACCATTGAG
AATGTCAAGGCAAAGATCCAGGACAAGGAAGGCATCCCTCCTGACCAGCAGAGGTTGATCTTTG
CTGGGAAACAGCTGGAAGATGGACGCACCCTGTCTGACTACAACATCCAGAAAGAGTCCACTCT
GCACTTGGTCCTGCGCTTGAGGGGGGGTGCCTAAGTTTCCCCTTTTAAGGTTTCAACAAATTTC
ATTGCACTTTTCTTTCAATAAAGTTGTTGCATTCCCAA

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Protein Sequences


Protein RefSeqs	XP_008003373	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_008003373 ⟸ XM_008005182

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCSAG00000001986	ENTREZGENE
NCBI Gene	UBC	ENTREZGENE

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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