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Gene: Vps52 (VPS52 subunit of GARP complex) Rattus norvegicus

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Symbol:

Vps52

Name:

VPS52 subunit of GARP complex

RGD ID:

3618

Description:

Predicted to enable syntaxin binding activity. Predicted to be involved in several processes, including cytosolic transport; endocytic recycling; and vacuolar transport. Predicted to act upstream of or within ectodermal cell differentiation and embryonic ectodermal digestive tract development. Predicted to be located in several cellular components, including Golgi apparatus; perinuclear region of cytoplasm; and recycling endosome. Predicted to be part of EARP complex and GARP complex. Predicted to be active in postsynapse and presynapse. Orthologous to human VPS52 (VPS52 subunit of GARP complex); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

Are1; SAC2 (suppressor of actin mutations 2 homolog)-like (S. cerevisiae); SAC2 (supressor of actin mutations 2, homolog)-like (S. cerevisiae); SAC2 suppressor of actin mutation 2-like; SAC2 suppressor of actin mutations 2-like protein; Sacm2l; suppressor of actin mutation 2-like; vacuolar protein sorting 52 (yeast); vacuolar protein sorting 52 homolog; vacuolar protein sorting 52 homolog (S. cerevisiae); vacuolar protein sorting-associated protein 52 homolog; VPS52 GARP complex subunit

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):	VPS52 (VPS52 subunit of GARP complex)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Vps52 (VPS52 GARP complex subunit)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Vps52 (VPS52 subunit of GARP complex)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	VPS52 (VPS52 subunit of GARP complex)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	VPS52 (VPS52 subunit of GARP complex)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Vps52 (VPS52 subunit of GARP complex)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	VPS52 (VPS52 subunit of GARP complex)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	VPS52 (VPS52 subunit of GARP complex)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Vps52 (VPS52 subunit of GARP complex)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Vps52 (VPS52 subunit of GARP complex)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	WRNIP1 (WRN helicase interacting protein 1)	HGNC	OMA
Alliance orthologs ³
Mus musculus (house mouse):	Vps52 (VPS52 GARP complex subunit)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	VPS52 (VPS52 subunit of GARP complex)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	vps52 (VPS52 subunit of GARP complex)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	VPS52	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	VPS52	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Vps52	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	vps-52	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	vps52	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	vps52	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB)

Related Pseudogenes:

Vps52-ps1 Vps52-ps2 Vps52-ps3 Vps52-ps4 Vps52-ps5 Vps52-ps6 Vps52-ps7

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	20	4,922,599 - 4,933,458 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	20	4,923,876 - 4,933,458 (-)	Ensembl				GRCr8
mRatBN7.2	20	4,920,715 - 4,931,685 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	20	4,860,843 - 4,931,665 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	20	5,645,463 - 5,655,060 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	20	5,007,208 - 5,016,805 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	20	5,487,922 - 5,497,595 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	20	5,431,997 - 5,441,736 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	5,432,004 - 5,441,706 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	20	7,490,616 - 7,500,348 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	20	5,073,753 - 5,083,339 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	20	6,506,237 - 6,515,816 (-)	NCBI		Celera
RGSC_v3.1	20	5,074,730 - 5,083,444 (-)	NCBI
Cytogenetic Map	20	p12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Prostatic Neoplasms (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP)

2,4-dinitrotoluene (EXP)

2,6-dinitrotoluene (EXP)

3,3',5,5'-tetrabromobisphenol A (ISO)

3,4-methylenedioxymethamphetamine (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-sulfonyldiphenol (ISO)

5-fluorouracil (ISO)

acrylamide (ISO)

Aflatoxin B2 alpha (ISO)

all-trans-retinoic acid (ISO)

ammonium chloride (EXP)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

butanal (ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

cisplatin (ISO)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

D-gluconic acid (EXP)

decabromodiphenyl ether (EXP)

dexamethasone (ISO)

Dibutyl phosphate (ISO)

dicrotophos (ISO)

dorsomorphin (ISO)

ethanol (ISO)

genistein (ISO)

indometacin (ISO)

ivermectin (ISO)

methapyrilene (ISO)

paracetamol (EXP,ISO)

pirinixic acid (EXP)

SB 431542 (ISO)

sevoflurane (ISO)

sodium arsenite (ISO)

thiram (ISO)

urethane (ISO)

valproic acid (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

ectodermal cell differentiation (ISO)

embryonic ectodermal digestive tract development (ISO)

endocytic recycling (IBA,IEA,ISO,ISS)

Golgi to vacuole transport (IBA)

lysosomal transport (IBA,ISO)

protein targeting (IEA,ISO)

protein transport (IEA)

retrograde transport, endosome to Golgi (IBA)

vesicle-mediated cholesterol transport (IEA,ISO)

Cellular Component

cytosol (IEA)

EARP complex (IEA,ISO,ISS)

endosome membrane (IEA)

GARP complex (IBA,IEA,ISO)

Golgi apparatus (IEA,ISO)

membrane (IEA,ISO)

perinuclear region of cytoplasm (IEA,ISO)

postsynapse (IEA,ISO)

presynapse (IEA,ISO)

recycling endosome (IEA,ISO,ISS)

Molecular Function

protein binding (IPI,ISO)

syntaxin binding (IBA,IEA,ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
3.	GOA pipeline	RGD automated data pipeline
4.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
6.	The EARP Complex and Its Interactor EIPR-1 Are Required for Cargo Sorting to Dense-Core Vesicles.	Topalidou I, etal., PLoS Genet. 2016 May 18;12(5):e1006074. doi: 10.1371/journal.pgen.1006074. eCollection 2016 May.
7.	Identification of a novel highly conserved gene in the centromeric part of the major histocompatibility complex.	Walter L and Gunther E, Genomics 1998 Sep 15;52(3):298-304.

Additional References at PubMed

PMID:12477932	PMID:15060004	PMID:15878329	PMID:22871113	PMID:23142660	PMID:25799061	PMID:27440922

Genomics

Comparative Map Data

Vps52
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	20	4,922,599 - 4,933,458 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	20	4,923,876 - 4,933,458 (-)	Ensembl				GRCr8
mRatBN7.2	20	4,920,715 - 4,931,685 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	20	4,860,843 - 4,931,665 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	20	5,645,463 - 5,655,060 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	20	5,007,208 - 5,016,805 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	20	5,487,922 - 5,497,595 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	20	5,431,997 - 5,441,736 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	5,432,004 - 5,441,706 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	20	7,490,616 - 7,500,348 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	20	5,073,753 - 5,083,339 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	20	6,506,237 - 6,515,816 (-)	NCBI		Celera
RGSC_v3.1	20	5,074,730 - 5,083,444 (-)	NCBI
Cytogenetic Map	20	p12	NCBI

VPS52
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	6	33,250,272 - 33,271,965 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	6	33,250,272 - 33,272,047 (-)	Ensembl			hg38	GRCh38
GRCh37	6	33,218,049 - 33,239,742 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	33,326,027 - 33,347,640 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Celera	6	34,772,418 - 34,794,017 (-)	NCBI		Celera
Cytogenetic Map	6	p21.32	NCBI
HuRef	6	32,960,078 - 32,981,319 (-)	NCBI		HuRef
CHM1_1	6	33,220,041 - 33,241,595 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	6	33,071,634 - 33,093,327 (-)	NCBI		T2T-CHM13v2.0

Vps52
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	34,174,753 - 34,186,012 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	17	34,174,786 - 34,186,009 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	17	33,955,779 - 33,967,038 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	33,955,812 - 33,967,035 (+)	Ensembl			mm10	GRCm38
MGSCv37	17	34,092,827 - 34,103,433 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	17	33,566,266 - 33,577,438 (+)	NCBI		MGSCv36	mm8
Celera	17	36,708,772 - 36,718,743 (+)	NCBI		Celera
Cytogenetic Map	17	B1	NCBI
cM Map	17	17.98	NCBI

Vps52
(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_004955437	1,820,817 - 1,833,363 (-)	Ensembl
ChiLan1.0	NW_004955437	1,820,355 - 1,833,615 (-)	NCBI	ChiLan1.0	ChiLan1.0

VPS52
(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	5	47,728,005 - 47,749,819 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	6	43,599,681 - 43,621,467 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	6	32,822,394 - 32,844,120 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	6	33,936,683 - 33,958,404 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	6	33,936,683 - 33,958,404 (-)	Ensembl			panPan2	panpan1.1

VPS52
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	12	2,697,508 - 2,712,831 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	12	2,697,508 - 2,712,831 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	12	2,778,649 - 2,793,972 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	12	3,028,483 - 3,043,812 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	12	3,028,488 - 3,043,823 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	12	2,696,593 - 2,711,699 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	12	2,777,932 - 2,793,204 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	12	2,852,572 - 2,867,899 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Vps52
(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_024404946	38,348,223 - 38,366,057 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936476	25,594,114 - 25,612,066 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936476	25,594,168 - 25,612,044 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

VPS52
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	29,624,230 - 29,639,140 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	7	29,624,224 - 29,639,168 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	34,127,990 - 34,142,475 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

VPS52
(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	17	38,805,072 - 38,824,526 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	17	38,805,355 - 38,825,383 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666044	33,087,431 - 33,107,067 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Vps52
(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_004624754	23,548,998 - 23,563,931 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624754	23,549,033 - 23,563,756 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Vps52
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	18	6,962,308 - 6,971,524 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Vps52
321 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	331
Count of miRNA genes:	191
Interacting mature miRNAs:	212
Transcripts:	ENSRNOT00000000549
Prediction methods:	Microtar, Miranda, Rnahybrid
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
4889610	Pancm3	Pancreatic morphology QTL 3	3.75	0.001	pancreas mass (VT:0010144)	pancreas wet weight (CMO:0000626)	20	4189476	49189476	Rat
2306850	Pia40	Pristane induced arthritis QTL 40		0.0001	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	20	1533200	5306452	Rat
1354642	Despr15	Despair related QTL 15		0.0027	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	20	1	24164241	Rat
70154	Insul2	Insulin level QTL 2	3.75		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	20	1	6693431	Rat
4889857	Pur27	Proteinuria QTL 27	12.2	0.001	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	20	1	27341128	Rat
9590109	Sffal8	Serum free fatty acids level QTL 8	5.32	0.01	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	20	1	29193376	Rat
9590275	Scort15	Serum corticosterone level QTL 15	3.48	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	20	1	29193376	Rat
7175096	Tcs1	T cell selection QTL 1			T cell selection trait (VT:0004917)	expression	20	4728282	5026446	Rat
6893685	Bw111	Body weight QTL 111	2.7	0.004	body mass (VT:0001259)	body weight (CMO:0000012)	20	1	32578510	Rat
61474	Eae1	Experimental allergic encephalomyelitis QTL 1	3		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis severity score (CMO:0001419)	20	1	6693431	Rat
2317057	Aia27	Adjuvant induced arthritis QTL 27	2.83		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	20	1	26925056	Rat
1641915	Colcr9	Colorectal carcinoma resistance QTL 9	2.97	0.0024	intestine integrity trait (VT:0010554)	benign colorectal tumor number (CMO:0001795)	20	1	33724594	Rat
7387283	Uae44	Urinary albumin excretion QTL 44		0.1712	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	20	1	26128279	Rat
7411668	Foco32	Food consumption QTL 32	8	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	20	1	36600300	Rat
2305926	Iddm37	Insulin dependent diabetes mellitus QTL 37	6		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	20	1533083	46533083	Rat
1558640	Prcs2	Prostate cancer susceptibility QTL 2	3.3		prostate integrity trait (VT:0010571)	percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)	20	1	34066551	Rat
1331772	Cdexp2	CD45RC expression in CD8 T cells QTL 2	5.7		CD8-positive T cell quantity (VT:0008077)	blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)	20	3626323	10078622	Rat
8694189	Bw153	Body weight QTL 153	3.13	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	20	1	29193376	Rat
1300152	Bp195	Blood pressure QTL 195	3.46		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	20	3626323	9244918	Rat
9589155	Insul32	Insulin level QTL 32	6.38	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	20	1	29193376	Rat
7411650	Foco23	Food consumption QTL 23	20.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	20	1	29193376	Rat
61432	Cia1	Collagen induced arthritis QTL 1			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	20	1	14100378	Rat
2317851	Alcrsp22	Alcohol response QTL 22	3.2	0.05	response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	20	1	27341128	Rat
1641893	Alcrsp7	Alcohol response QTL 7			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	20	1	27341128	Rat
9590252	Scort12	Serum corticosterone level QTL 12	20.46	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	20	1	36600300	Rat

Markers in Region

D20Yum82

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	20	4,929,504 - 4,929,655 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	5,439,520 - 5,439,670	NCBI	Rnor6.0
Rnor_5.0	20	7,498,132 - 7,498,282	UniSTS	Rnor5.0
RGSC_v3.4	20	5,081,271 - 5,081,421	UniSTS	RGSC3.4
Celera	20	6,513,748 - 6,513,898	UniSTS
Cytogenetic Map	20	p12	UniSTS

RH141313

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	20	4,921,983 - 4,922,189 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	5,431,998 - 5,432,203	NCBI	Rnor6.0
Rnor_5.0	20	7,490,610 - 7,490,815	UniSTS	Rnor5.0
RGSC_v3.4	20	5,073,747 - 5,073,952	UniSTS	RGSC3.4
Celera	20	6,506,231 - 6,506,436	UniSTS
RH 3.4 Map	20	53.53	UniSTS
Cytogenetic Map	20	p12	UniSTS

RH141868

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	20	4,924,475 - 4,924,682 (+)	Marker Load Pipeline
mRatBN7.2	20	4,922,591 - 4,922,798 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	5,432,606 - 5,432,812	NCBI	Rnor6.0
Rnor_5.0	20	7,491,218 - 7,491,424	UniSTS	Rnor5.0
RGSC_v3.4	20	5,074,355 - 5,074,561	UniSTS	RGSC3.4
Celera	20	6,506,839 - 6,507,045	UniSTS
RH 3.4 Map	20	57.0	UniSTS
Cytogenetic Map	20	p12	UniSTS

UniSTS:463437

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	20	4,924,733 - 4,926,220 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	5,434,748 - 5,436,234	NCBI	Rnor6.0
Rnor_5.0	20	7,493,360 - 7,494,846	UniSTS	Rnor5.0
RGSC_v3.4	20	5,076,497 - 5,077,983	UniSTS	RGSC3.4
Celera	20	6,508,981 - 6,510,467	UniSTS
Cytogenetic Map	20	p12	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	164	91	90	59	92	59	6	356	192	11	143	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_033097	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008772707	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008772709	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039098438	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039098440	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063278973	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005497173	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005497174	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005497175	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC128962	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AJ223830	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AJ223831	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC166419	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BX883042	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473988	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000020	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000000549 ⟹ ENSRNOP00000000549

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	20	4,921,992 - 4,931,573 (-)	Ensembl
Rnor_6.0 Ensembl	20	5,432,004 - 5,441,706 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000092306

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	20	5,433,623 - 5,435,494 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000092458

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	20	5,433,629 - 5,434,234 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000092539

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	20	5,439,980 - 5,440,690 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000092605

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	20	5,439,671 - 5,440,146 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000092640

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	20	5,439,026 - 5,440,231 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000096948 ⟹ ENSRNOP00000087040

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	20	4,920,743 - 4,931,665 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000107087 ⟹ ENSRNOP00000080803

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	20	4,860,843 - 4,931,462 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000120560 ⟹ ENSRNOP00000098201

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	20	4,923,876 - 4,933,458 (-)	Ensembl

RefSeq Acc Id:

NM_033097 ⟹ NP_149088

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	4,923,874 - 4,933,458 (-)	NCBI
mRatBN7.2	20	4,921,990 - 4,931,573 (-)	NCBI
Rnor_6.0	20	5,432,004 - 5,441,588 (-)	NCBI
Rnor_5.0	20	7,490,616 - 7,500,348 (-)	NCBI
RGSC_v3.4	20	5,073,753 - 5,083,339 (-)	RGD
Celera	20	6,506,237 - 6,515,816 (-)	RGD

Sequence:

show sequence

CGTTAGCTCAACTATCTGGGAACCTTTTGTTGCTCCGTAGAAGACGTTCCAGGACTTGTGGCTT
TGCTTCGGGAAACGGACTCTCAGAGACTGACAGCTGCCGGAAGTGAGGCTGCGGGGGAATGGCA
GCCGCGGCGACCATGGCGGCTGCTGCCCGGGAGCTGGTGTTGCGGGCCGGCGCTTCAGATATGG
AGGAGGAGGAGGGCCCGCTGGGGGCTGGTTCTGGACTCCAAGAGCCCCTACAACTCGGGGAGTT
GGATATCACCTCTGATGAATTCATCTTGGATGAAGTGGATGTTCACATCCAGGCAAATCTGGAA
GACGAGTTAGTGAAGGAAGCTCTCAAAACGGGTGTGGATCTTCGACACTATTCAAAGCAGGTGG
AGCTAGAGCTGCAGCAGATTGAGCAGAAGTCAATCCGGGACTACATCCAAGAGAGTGAAAACAT
AGCCTCTCTGCACAATCAGATCACAGCCTGTGATGCCGTCCTAGAGCGCATGGAGCAGATGCTG
GGAGCTTTTCAGAGCGACCTCAGCTCCATCAGCTGTGAGATCCGCACCCTGCAGGAGCAGTCGG
GGGCCATGAACATCCGACTTCGTAACCGGCAGGCAGTTCGGGGGAAACTTGGGGAACTCGTCGA
TGGGCTAGTGGTGCCCTCTGCTCTGGTCACAGCAATTCTCGAAGCTCCAGTGACAGAGCCCAGG
TTCCTGGAGCAGCTCCAGGAGCTGGACGCCAAGGCGGCTGCGGTCAGAGAGCAGGAGGCGAGAG
GCACGGCCGCCTGTGCAGACGTCAGAGGCGTGCTCGACCGGCTCCGGGTCAAGGCGGTGACAAA
GATCCGTGAGTTCATTCTCCAGAAGATTTACTCGTTCCGAAAGCCGATGACCAACTATCAGATC
CCCCAGACGGCCCTGCTGAAGTACAGGTTTTTCTATCAGTTTCTGCTGGGCAACGAGCGTGCTA
CAGCCAAGGAGGTCAGGGATGAGTACGTAGAGACGCTGAGCAAGATCTACCTGTCATACTACCG
CTCGTACGTGGGGCGGCTCATGAAAGTGCAGTACGAGGAAGTTGCTGAGAAAGACGATCTAATG
GGTGTAGAAGACACAGCAAAGAAAGGATTCTTCTCGAAGCCGTCCCTGCGAAGCAGGAACACCA
TCTTTACCCTGGGCACCCGTGGTGCTGTCATCTCACCGGCCGAGCTCGAGGCCCCCATCCTGGT
GCCCCATACTGCCCAGCGTGGAGAGCAGAGGTACCCGTTTGAAGCACTCTTCCGCAGCCAGCAC
TATGCCCTCCTTGACAATTCTTGCCGTGAATATCTCTTCATCTGTGAATTTTTCGTCGTCTCTG
GCCCGGCTGCCCATGACCTGTTCCACGCCGTCATGGGCCGCACGCTGTCCATGACGCTGAAACA
CCTGGAGTCCTACCTGGCCGACTGCTACGACGCCATTGCTGTTTTTCTCTGTATCCACATCGTT
CTCCGGTTCCGCAACATAGCAGCAAAGAGGGACGTCCCTGCCCTGGACAGATACTGGGAGCAGG
TGCTGGCCCTGCTGTGGCCTCGATTTGAGCTCATCCTGGAGATGAATGTGCAGAGCGTCCGCAG
CACTGACCCCCAGCGCCTCGGGGGGCTGGACACCCGGCCCCACTATATCACACGCCGCTACGCC
GAGTTCTCCTCCGCGCTTGTCAGCATCAACCAGACCATCCCCAATGAGCGCACGCTGCAGCTGC
TGGGACAGCTACAGGTGGAGGTGGAGAACTTTGTCCTCCGCGTGGCTGCGGAGTTCTCCTCCAG
GAAGGAGCAGCTCGTGTTTCTGATCAACAACTATGACATGATGCTGGGTGTGCTGATGGAGCGG
GCTGCTGACGACAGCAAAGAGGTGGAGAGTTTCCAGCAGCTGCTCAATGCTCGGACACAGGAGT
TCATTGAAGAGTTGCTGTCACCCCCCTTTGGAGGTCTGGTGGCATTTGTGAAGGAGGCTGAAGC
CTTGATTGAGCGTGGGCAGGCTGAGCGGCTCCGAGGGGAGGAAGCCCGAGTCACCCAGCTGATC
CGCGGCTTTGGTAGTTCCTGGAAGGCGTCAGTGGAGTCCCTGAGTCAGGATGTAATGCGGAGTT
TTACCAACTTTCGAAATGGAACCAGCATCATCCAGGGGGCGCTCACACAGCTGATCCAGCTCTA
CCATCGCTTCCACCGTGTGCTGTCCCAGCCTCAGCTCCGTGCCCTCCCTGCCAGGGCCGAACTC
ATCAACATCCATCACCTCATGGTGGAGCTGAAGAAACACAAGCCGAACTTCTGATTCAGACCCC
GGGGCCCGAAGCTCCCATGGGCTCTGCAGTCACACAGTGTCTGTCACCTGGGACCCCTTTCCTG
TTCCTGATGTCTCTAAGGCTTTCACACACCTCACTCAGCCTCCATTGCCAGGACTCTGCCTCAA
CAGAGTGTGCCCTCGGCCACTCCCTGGGCTTCTGAGGTGACCTTCATAGCCCAGCCCAGCCCCC
TCCTCTGCTGTTCACTCACAGCCTGTGAGCTCTCACCGCCCCAGTCCCTGACTGACACTCGGCT
CTCATGGCAGAGCGGTGCAGGCCACACTGCCCACGCTGCAGCTGATCTTCAGGCTCCACTGGGA
CAGTGGCATCAGCTCCCGGCGGGTGCACTCTGCCTGTGGCAATACAGTACTTACTGTGCTGGGA
CGTGTCCTCCCCTGTGTCCCTGGGTCCAGCATTTCTTTATTGTAGACCTAGTCAGTTCCTGGTG
GGCTGCAGCAAGGGTGGGGTAGTAGCCCGAGGACTGTTGGTGCTTCTGGCCCAGGGGTGGCATA
GTGGCTCAGGTGAGGACTGTTTTTACCTCTCCAGGAGGGTGGCACACGCCACAGGCCTGGGAAG
GTGAGAGCTCTGTGCACTGTCTTGAGGGCTGCCATGGGAGAATCCACACAGACTCTGAGATTGT
CTGTGTTGTCCTCTAAGTGGCTGTCACAGCTCCTTTGAGAGTGGAGGGCCTGTAATACCTGCAC
CCATGTGTCGAGGCAGGGGTGGACCTAGTCCCAAAACAGACCTTGTCATGTCCATGTGACCCAG
ACCCTTCCCACTGCCCTCTGCCCCACCTCTGTATGGAGTTTCCAGAGCAGTGGTTCTCAACCTT
CCTGAGACTCTTTAATACAGTTCTTCATGGTAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_008772707 ⟹ XP_008770929

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	4,922,599 - 4,933,386 (-)	NCBI
mRatBN7.2	20	4,920,715 - 4,931,681 (-)	NCBI
Rnor_6.0	20	5,431,997 - 5,441,736 (-)	NCBI

Sequence:

show sequence

CTTCCGGTTCGGTCTTCTTTGGCGTCGTAGGGTTCTTGTGCGGCCGAGGAGCGAAAGGTTCCGG
AGCAGGGTTGTGTTCAAGACGTTCACCTTCCCGTTTGCACCGGACCGAAGTGATCAAAGCCTAA
CGGGACTCTGGAGCCAATCACGTTAGCTCAACTATCTGGGAACCTTTTGTTGCTCCGTAGAAGA
CGTTCCAGGACTTGTGGCTTTGCTTCGGGAAACGGACTCTCAGAGACTGACAGCTGCCGGAAGT
GAGGCTGCGGGGGAATGGCAGCCGCGGCGACCATGGCGGCTGCTGCCCGGGAGCTGGTGTTGCG
GGCCGGCGCTTCAGATATGGAGGAGGAGGAGGGCCCGCTGGGGGCTGGTTCTGGACTCCAAGAG
CCCCTACAACTCGGGGAGTTGGATATCACCTCTGATGAATTCATCTTGGATGAAGTGGATGTTC
ACATCCAGGCAAATCTGGAAGACGAGTTAGTGAAGGAAGCTCTCAAAACGGGTGTGGATCTTCG
ACACTATTCAAAGCAGGTGGAGCTAGAGCTGCAGCAGATTGAGCAGAAGTCAATCCGGGACTAC
ATCCAAGAGAGTGAAAACATAGCCTCTCTGCACAATCAGATCACAGCCTGTGATGCCGTCCTAG
AGCGCATGGAGCAGATGCTGGGAGCTTTTCAGAGCGACCTCAGCTCCATCAGCTGTGAGATCCG
CACCCTGCAGGAGCAGTCGGGGGCCATGAACATCCGACTTCGTAACCGGCAGGCAGTTCGGGGG
AAACTTGGGGAACTCGTCGATGGGCTAGTGGTGCCCTCTGCTCTGGTCACAGCAATTCTCGAAG
CTCCAGTGACAGAGCCCAGGTTCCTGGAGCAGCTCCAGGAGCTGGACGCCAAGGCGGCTGCGGT
CAGAGAGCAGGAGGCGAGAGGCACGGCCGCCTGTGCAGACGTCAGAGGCGTGCTCGACCGGCTC
CGGGTCAAGGCGGTGACAAAGATCCGTGAGTTCATTCTCCAGAAGATTTACTCGTTCCGAAAGC
CGATGACCAACTATCAGATCCCCCAGACGGCCCTGCTGAAGTACAGGTTTTTCTATCAGTTTCT
GCTGGGCAACGAGCGTGCTACAGCCAAGGAGGTCAGGGATGAGTACGTAGAGACGCTGAGCAAG
ATCTACCTGTCATACTACCGCTCGTACGTGGGGCGGCTCATGAAAGTGCAGTACGAGGAAGTTG
CTGAGAAAGACGATCTAATGGGTGTAGAAGACACAGCAAAGAAAGGATTCTTCTCGAAGCCGTC
CCTGCGAAGCAGGAACACCATCTTTACCCTGGGCACCCGTGGTGCTGTCATCTCACCGGCCGAG
CTCGAGGCCCCCATCCTGGTGCCCCATACTGCCCAGCGTGGAGAGCAGAGGTACCCGTTTGAAG
CACTCTTCCGCAGCCAGCACTATGCCCTCCTTGACAATTCTTGCCGTGAATATCTCTTCATCTG
TGAATTTTTCGTCGTCTCTGGCCCGGCTGCCCATGACCTGTTCCACGCCGTCATGGGCCGCACG
CTGTCCATGACGCTGCCACTCGAACAACAGCTAACGTTCAGTTGTCTGCCTGTTGCTGTGCCAC
AGAAACACCTGGAGTCCTACCTGGCCGACTGCTACGACGCCATTGCTGTTTTTCTCTGTATCCA
CATCGTTCTCCGGTTCCGCAACATAGCAGCAAAGAGGGACGTCCCTGCCCTGGACAGATACTGG
GAGCAGGTGCTGGCCCTGCTGTGGCCTCGATTTGAGCTCATCCTGGAGATGAATGTGCAGAGCG
TCCGCAGCACTGACCCCCAGCGCCTCGGGGGGCTGGACACCCGGCCCCACTATATCACACGCCG
CTACGCCGAGTTCTCCTCCGCGCTTGTCAGCATCAACCAGACCATCCCCAATGAGCGCACGCTG
CAGCTGCTGGGACAGCTACAGGTGGAGGTGGAGAACTTTGTCCTCCGCGTGGCTGCGGAGTTCT
CCTCCAGGAAGGAGCAGCTCGTGTTTCTGATCAACAACTATGACATGATGCTGGGTGTGCTGAT
GGAGCGGGCTGCTGACGACAGCAAAGAGGTGGAGAGTTTCCAGCAGCTGCTCAATGCTCGGACA
CAGGAGTTCATTGAAGAGTTGCTGTCACCCCCCTTTGGAGGTCTGGTGGCATTTGTGAAGGAGG
CTGAAGCCTTGATTGAGCGTGGGCAGGCTGAGCGGCTCCGAGGGGAGGAAGCCCGAGTCACCCA
GCTGATCCGCGGCTTTGGTAGTTCCTGGAAGGCGTCAGTGGAGTCCCTGAGTCAGGATGTAATG
CGGAGTTTTACCAACTTTCGAAATGGAACCAGCATCATCCAGGGGGCGCTCACACAGCTGATCC
AGCTCTACCATCGCTTCCACCGTGTGCTGTCCCAGCCTCAGCTCCGTGCCCTCCCTGCCAGGGC
CGAACTCATCAACATCCATCACCTCATGGTGGAGCTGAAGAAACACAAGCCGAACTTCTGATTC
AGACCCCGGGGCCCGAAGCTCCCATGGGCTCTGCAGTCACACAGTGTCTGTCACCTGGGACCCC
TTTCCTGTTCCTGATGTCTCTAAGGCTTTCACACACCTCACTCAGCCTCCATTGCCAGGACTCT
GCCTCAACAGAGTGTGCCCTCGGCCACTCCCTGGGCTTCTGAGGTGACCTTCATAGCCCAGCCC
AGCCCCCTCCTCTGCTGTTCACTCACAGCCTGTGAGCTCTCACCGCCCCAGTCCCTGACTGACA
CTCGGCTCTCATGGCAGAGCGGTGCAGGCCACACTGCCCACGCTGCAGCTGATCTTCAGGCTCC
ACTGGGACAGTGGCATCAGCTCCCGGCGGGTGCACTCTGCCTGTGGCAATACAGTACTTACTGT
GCTGGGACGTGTCCTCCCCTGTGTCCCTGGGTCCAGCATTTCTTTATTGTAGACCTAGTCAGTT
CCTGGTGGGCTGCAGCAAGGGTGGGGTAGTAGCCCGAGGACTGTTGGTGCTTCTGGCCCAGGGG
TGGCATAGTGGCTCAGGTGAGGACTGTTTTTACCTCTCCAGGAGGGTGGCACACGCCACAGGCC
TGGGAAGGTGAGAGCTCTGTGCACTGTCTTGAGGGCTGCCATGGGAGAATCCACACAGACTCTG
AGATTGTCTGTGTTGTCCTCTAAGTGGCTGTCACAGCTCCTTTGAGAGTGGAGGGCCTGTAATA
CCTGCACCCATGTGTCGAGGCAGGGGTGGACCTAGTCCCAAAACAGACCTTGTCATGTCCATGT
GACCCAGACCCTTCCCACTGCCCTCTGCCCCACCTCTGTATGGAGTTTCCAGAGCAGTGGTTCT
CAACCTTCCTGAGACTCTTTAATACAGTTCTTCATGGTAATCCCGAC

hide sequence

RefSeq Acc Id:

XM_039098438 ⟹ XP_038954366

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	4,924,901 - 4,933,386 (-)	NCBI
mRatBN7.2	20	4,922,990 - 4,931,684 (-)	NCBI

RefSeq Acc Id:

XM_039098440 ⟹ XP_038954368

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	4,928,051 - 4,933,386 (-)	NCBI
mRatBN7.2	20	4,926,172 - 4,931,679 (-)	NCBI

RefSeq Acc Id:

XM_063278973 ⟹ XP_063135043

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	4,922,599 - 4,931,853 (-)	NCBI

RefSeq Acc Id:

XR_005497173

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	4,927,020 - 4,933,386 (-)	NCBI
mRatBN7.2	20	4,923,703 - 4,931,683 (-)	NCBI

RefSeq Acc Id:

XR_005497174

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	4,927,020 - 4,933,386 (-)	NCBI
mRatBN7.2	20	4,925,136 - 4,931,682 (-)	NCBI

RefSeq Acc Id:

XR_005497175

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	4,927,020 - 4,933,386 (-)	NCBI
mRatBN7.2	20	4,925,136 - 4,931,677 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_149088	(Get FASTA)	NCBI Sequence Viewer
	XP_008770929	(Get FASTA)	NCBI Sequence Viewer
	XP_038954366	(Get FASTA)	NCBI Sequence Viewer
	XP_038954368	(Get FASTA)	NCBI Sequence Viewer
	XP_063135043	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI66419	(Get FASTA)	NCBI Sequence Viewer
	CAA11566	(Get FASTA)	NCBI Sequence Viewer
	CAA11568	(Get FASTA)	NCBI Sequence Viewer
	CAE83926	(Get FASTA)	NCBI Sequence Viewer
	EDL96840	(Get FASTA)	NCBI Sequence Viewer
	EDL96841	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000000549.3
	ENSRNOP00000098201
GenBank Protein	O55166	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_149088 ⟸ NM_033097

- UniProtKB:

O55166 (UniProtKB/Swiss-Prot), B2GUV2 (UniProtKB/TrEMBL), A0A8I6A724 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MAAAATMAAAARELVLRAGASDMEEEEGPLGAGSGLQEPLQLGELDITSDEFILDEVDVHIQAN
LEDELVKEALKTGVDLRHYSKQVELELQQIEQKSIRDYIQESENIASLHNQITACDAVLERMEQ
MLGAFQSDLSSISCEIRTLQEQSGAMNIRLRNRQAVRGKLGELVDGLVVPSALVTAILEAPVTE
PRFLEQLQELDAKAAAVREQEARGTAACADVRGVLDRLRVKAVTKIREFILQKIYSFRKPMTNY
QIPQTALLKYRFFYQFLLGNERATAKEVRDEYVETLSKIYLSYYRSYVGRLMKVQYEEVAEKDD
LMGVEDTAKKGFFSKPSLRSRNTIFTLGTRGAVISPAELEAPILVPHTAQRGEQRYPFEALFRS
QHYALLDNSCREYLFICEFFVVSGPAAHDLFHAVMGRTLSMTLKHLESYLADCYDAIAVFLCIH
IVLRFRNIAAKRDVPALDRYWEQVLALLWPRFELILEMNVQSVRSTDPQRLGGLDTRPHYITRR
YAEFSSALVSINQTIPNERTLQLLGQLQVEVENFVLRVAAEFSSRKEQLVFLINNYDMMLGVLM
ERAADDSKEVESFQQLLNARTQEFIEELLSPPFGGLVAFVKEAEALIERGQAERLRGEEARVTQ
LIRGFGSSWKASVESLSQDVMRSFTNFRNGTSIIQGALTQLIQLYHRFHRVLSQPQLRALPARA
ELINIHHLMVELKKHKPNF

hide sequence

RefSeq Acc Id:	XP_008770929 ⟸ XM_008772707
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6A724 (UniProtKB/TrEMBL)
- Sequence:	show sequence MAAAATMAAAARELVLRAGASDMEEEEGPLGAGSGLQEPLQLGELDITSDEFILDEVDVHIQAN LEDELVKEALKTGVDLRHYSKQVELELQQIEQKSIRDYIQESENIASLHNQITACDAVLERMEQ MLGAFQSDLSSISCEIRTLQEQSGAMNIRLRNRQAVRGKLGELVDGLVVPSALVTAILEAPVTE PRFLEQLQELDAKAAAVREQEARGTAACADVRGVLDRLRVKAVTKIREFILQKIYSFRKPMTNY QIPQTALLKYRFFYQFLLGNERATAKEVRDEYVETLSKIYLSYYRSYVGRLMKVQYEEVAEKDD LMGVEDTAKKGFFSKPSLRSRNTIFTLGTRGAVISPAELEAPILVPHTAQRGEQRYPFEALFRS QHYALLDNSCREYLFICEFFVVSGPAAHDLFHAVMGRTLSMTLPLEQQLTFSCLPVAVPQKHLE SYLADCYDAIAVFLCIHIVLRFRNIAAKRDVPALDRYWEQVLALLWPRFELILEMNVQSVRSTD PQRLGGLDTRPHYITRRYAEFSSALVSINQTIPNERTLQLLGQLQVEVENFVLRVAAEFSSRKE QLVFLINNYDMMLGVLMERAADDSKEVESFQQLLNARTQEFIEELLSPPFGGLVAFVKEAEALI ERGQAERLRGEEARVTQLIRGFGSSWKASVESLSQDVMRSFTNFRNGTSIIQGALTQLIQLYHR FHRVLSQPQLRALPARAELINIHHLMVELKKHKPNF hide sequence

Ensembl Acc Id:

ENSRNOP00000000549 ⟸ ENSRNOT00000000549

RefSeq Acc Id:	XP_038954366 ⟸ XM_039098438
- Peptide Label:	isoform X2
- UniProtKB:	A0A8I6A724 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038954368 ⟸ XM_039098440
- Peptide Label:	isoform X4

Ensembl Acc Id:

ENSRNOP00000087040 ⟸ ENSRNOT00000096948

Ensembl Acc Id:

ENSRNOP00000080803 ⟸ ENSRNOT00000107087

RefSeq Acc Id:	XP_063135043 ⟸ XM_063278973
- Peptide Label:	isoform X3
- UniProtKB:	A0A8I6A724 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSRNOP00000098201 ⟸ ENSRNOT00000120560

Protein Domains

Vps52 C-terminal Vps52 coiled-coil

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-O55166-F1-model_v2	AlphaFold	O55166	1-723	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Promoters

RGD ID:

13701409

Promoter ID:

EPDNEW_R11932

Type:

initiation region

Name:

Vps52_1

Description:

VPS52 GARP complex subunit

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	20	5,441,674 - 5,441,734	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:3618	AgrOrtholog
BioCyc Gene	G2FUF-4522	BioCyc
Ensembl Genes	ENSRNOG00000000470	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000000549.6	UniProtKB/Swiss-Prot
	ENSRNOT00000120560	ENTREZGENE
IMAGE_CLONE	IMAGE:9029985	IMAGE-MGC_LOAD
InterPro	Vps52	UniProtKB/Swiss-Prot
	Vps52_C	UniProtKB/Swiss-Prot
	Vps52_CC	UniProtKB/Swiss-Prot
KEGG Report	rno:25218	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:187352	IMAGE-MGC_LOAD
NCBI Gene	25218	ENTREZGENE
PANTHER	PTHR14190	UniProtKB/Swiss-Prot
	VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 52 HOMOLOG	UniProtKB/Swiss-Prot
Pfam	Vps52	UniProtKB/Swiss-Prot
	Vps52_C	UniProtKB/Swiss-Prot
PhenoGen	Vps52	PhenoGen
RatGTEx	ENSRNOG00000000470	RatGTEx
UniProt	A0A8I6A724	ENTREZGENE
	A6JJH5_RAT	UniProtKB/TrEMBL
	B2GUV2	ENTREZGENE, UniProtKB/TrEMBL
	O55166	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2019-04-02	Vps52	VPS52 subunit of GARP complex	Vps52	VPS52 GARP complex subunit	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2015-11-25	Vps52	VPS52 GARP complex subunit	Vps52	vacuolar protein sorting 52 homolog (S. cerevisiae)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-09-25	Vps52	vacuolar protein sorting 52 homolog (S. cerevisiae)	Vps52	vacuolar protein sorting 52 (yeast)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-09-10	Vps52	vacuolar protein sorting 52 (yeast)	Sacm2l	SAC2 (supressor of actin mutations 2, homolog)-like (S. cerevisiae)	Symbol and Name updated	1299863	APPROVED
2002-06-10	Sacm2l	SAC2 (supressor of actin mutations 2, homolog)-like (S. cerevisiae)			Name updated	70584	APPROVED
2002-02-20	Sacm2l	SAC2 (suppressor of actin mutations 2 homolog)-like (S. cerevisiae)			Name updated to reflect Human and Mouse nomenclature	70282	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_domains	contains a putative coiled-coil region and significant homology	633999

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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