Msr1 (macrophage scavenger receptor 1)

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Gene: Msr1 (macrophage scavenger receptor 1) Rattus norvegicus

Analyze

Symbol:

Msr1

Name:

macrophage scavenger receptor 1

RGD ID:

1564316

Description:

Predicted to enable amyloid-beta binding activity; cargo receptor activity; and low-density lipoprotein particle binding activity. Involved in cellular response to organic cyclic compound. Located in cytoplasmic vesicle; cytosol; and plasma membrane. Human ortholog(s) of this gene implicated in Barrett's esophagus; arteriosclerosis; and prostate cancer. Orthologous to human MSR1 (macrophage scavenger receptor 1); PARTICIPATES IN phagocytosis pathway; INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; acetamide.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC498638; macrophage scavenger receptor types I and II; RGD1564316; similar to scavenger receptor type A SR-A

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

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):	MSR1 (macrophage scavenger receptor 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Msr1 (macrophage scavenger receptor 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Msr1 (macrophage scavenger receptor 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	MSR1 (macrophage scavenger receptor 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	MSR1 (macrophage scavenger receptor 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Msr1 (macrophage scavenger receptor 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	MSR1 (macrophage scavenger receptor 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	MSR1 (macrophage scavenger receptor 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Msr1 (macrophage scavenger receptor 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	MSR1 (macrophage scavenger receptor 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Msr1 (macrophage scavenger receptor 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	16	52,717,775 - 52,802,890 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	16	52,717,732 - 52,799,676 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	16	58,047,955 - 58,113,146 (+)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	16	61,453,017 - 61,518,269 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	16	56,681,953 - 56,747,156 (+)	NCBI	Rnor_WKY
Rnor_6.0	16	56,817,714 - 56,900,025 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	16	56,813,791 - 56,900,052 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	16	56,516,982 - 56,597,180 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	16	56,278,223 - 56,345,472 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	16	50,621,592 - 50,686,791 (+)	NCBI		Celera
Cytogenetic Map	16	q12.1	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

arteriosclerosis (ISO)

Barrett's esophagus (ISO)

COVID-19 (ISO)

end stage renal disease (ISO)

genetic disease (ISO)

Heart Rupture, Post-Infarction (ISO)

Hereditary Neoplastic Syndromes (ISO)

Myocardial Ischemia (ISO)

Ovarian Neoplasms (ISO)

prostate cancer (ISO)

Prostatic Neoplasms (ISO)

severe acute respiratory syndrome (ISO)

X-linked Alport syndrome (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(R)-lipoic acid (ISO)

1,2-dimethylhydrazine (EXP,ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

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

2,2',5,5'-tetrachlorobiphenyl (ISO)

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

3,3',4,4',5-pentachlorobiphenyl (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

5-aza-2'-deoxycytidine (ISO)

acetamide (EXP)

acrylamide (ISO)

antirheumatic drug (ISO)

apocynin (ISO)

aristolochic acid A (ISO)

arsenous acid (ISO)

atorvastatin calcium (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

bisdemethoxycurcumin (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

Calcimycin (ISO)

calcitriol (ISO)

carbon nanotube (ISO)

carmustine (ISO)

cholesterol (ISO)

choline (ISO)

chrysene (ISO)

curcumin (ISO)

cycloheximide (ISO)

demethoxycurcumin (ISO)

desferrioxamine B (ISO)

diarsenic trioxide (ISO)

dibenz[a,h]anthracene (ISO)

dioxygen (EXP,ISO)

disodium selenite (ISO)

epoxiconazole (ISO)

ethanol (ISO)

ethyl methanesulfonate (ISO)

folic acid (ISO)

formaldehyde (ISO)

furosemide (EXP)

glyphosate (EXP)

hydrogen peroxide (ISO)

hydroxyl (ISO)

irinotecan (EXP)

isoprenaline (ISO)

L-methionine (ISO)

lidocaine (EXP)

lipoic acid (ISO)

lipopolysaccharide (ISO)

mercury atom (ISO)

mercury dichloride (ISO)

mercury(0) (ISO)

methyl methanesulfonate (ISO)

miquelianin (ISO)

Monobutylphthalate (EXP)

ozone (ISO)

paracetamol (ISO)

paraquat (EXP)

PCB138 (ISO)

phorbol 13-acetate 12-myristate (ISO)

procyanidin B3 (ISO)

quartz (EXP)

resveratrol (ISO)

rotenone (ISO)

silicon dioxide (ISO)

sirolimus (ISO)

sodium arsenite (ISO)

sodium benzoate (ISO)

tamibarotene (ISO)

Tanshinone I (ISO)

TEMPO (ISO)

tetrachloromethane (ISO)

tetraphene (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

tremolite asbestos (ISO)

trichloroethene (EXP)

trichostatin A (ISO)

valproic acid (ISO)

zinc oxide (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

amyloid-beta clearance (IBA,ISO)

cellular response to organic cyclic compound (IEP)

cholesterol transport (ISO)

establishment of localization in cell (ISO)

lipoprotein transport (ISO)

negative regulation of gene expression (ISO)

phagocytosis, engulfment (ISO)

plasma lipoprotein particle clearance (IBA,ISO)

positive regulation of cholesterol storage (IBA,ISO)

positive regulation of macrophage derived foam cell differentiation (ISO)

receptor-mediated endocytosis (ISO)

Cellular Component

cytoplasmic vesicle (IDA)

cytosol (IDA)

plasma membrane (IDA)

plasma membrane (ISO)

Molecular Function

amyloid-beta binding (IBA,ISO)

cargo receptor activity (ISO)

low-density lipoprotein particle binding (IBA,ISO)

molecular_function (ND)

protein binding (ISO)

scavenger receptor activity (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

phagocytosis pathway (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	Scavenger receptor-A-targeted leukocyte depletion inhibits peritoneal ovarian tumor progression.	Bak SP, etal., Cancer Res. 2007 May 15;67(10):4783-9.
2.	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.
3.	Adeno-associated virus-mediated gene transfer of a secreted decoy human macrophage scavenger receptor reduces atherosclerotic lesion formation in LDL receptor knockout mice.	Jalkanen J, etal., Mol Ther. 2003 Dec;8(6):903-10.
4.	Potential effects of microglial activation induced by ginsenoside Rg3 in rat primary culture: enhancement of type A Macrophage Scavenger Receptor expression.	Joo SS and Lee DI, Arch Pharm Res. 2005 Oct;28(10):1164-9.
5.	Elucidating the molecular physiopathology of acute respiratory distress syndrome in severe acute respiratory syndrome patients.	Kong SL, etal., Virus Res. 2009 Nov;145(2):260-9. Epub 2009 Jul 25.
6.	Pulmonary surfactant protein A augments the phagocytosis of Streptococcus pneumoniae by alveolar macrophages through a casein kinase 2-dependent increase of cell surface localization of scavenger receptor A.	Kuronuma K, etal., J Biol Chem. 2004 May 14;279(20):21421-30. Epub 2004 Mar 1.
7.	A genome-wide association study of breast and prostate cancer in the NHLBI's Framingham Heart Study.	Murabito JM, etal., BMC Med Genet. 2007 Sep 19;8 Suppl 1:S6.
8.	Class A macrophage scavenger receptor gene expression levels in peripheral blood mononuclear cells specifically increase in patients with acute coronary syndrome.	Nakayama M, etal., Atherosclerosis. 2008 Jun;198(2):426-33. Epub 2007 Oct 22.
9.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
10.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
11.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
13.	Comprehensive gene review and curation	RGD comprehensive gene curation
14.	Requirement of JNK2 for scavenger receptor A-mediated foam cell formation in atherogenesis.	Ricci R, etal., Science. 2004 Nov 26;306(5701):1558-61.
15.	A role for macrophage scavenger receptors in atherosclerosis and susceptibility to infection.	Suzuki H, etal., Nature. 1997 Mar 20;386(6622):292-6.
16.	Targeted deletion of class A macrophage scavenger receptor increases the risk of cardiac rupture after experimental myocardial infarction.	Tsujita K, etal., Circulation. 2007 Apr 10;115(14):1904-11. Epub 2007 Mar 26.

Additional References at PubMed

PMID:11240025	PMID:12376530	PMID:17148552	PMID:17237231	PMID:21765240	PMID:22438044	PMID:23823020	PMID:24718459

Genomics

Comparative Map Data

Msr1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	16	52,717,775 - 52,802,890 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	16	52,717,732 - 52,799,676 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	16	58,047,955 - 58,113,146 (+)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	16	61,453,017 - 61,518,269 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	16	56,681,953 - 56,747,156 (+)	NCBI	Rnor_WKY
Rnor_6.0	16	56,817,714 - 56,900,025 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	16	56,813,791 - 56,900,052 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	16	56,516,982 - 56,597,180 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	16	56,278,223 - 56,345,472 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	16	50,621,592 - 50,686,791 (+)	NCBI		Celera
Cytogenetic Map	16	q12.1	NCBI

MSR1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	8	16,107,881 - 16,192,651 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	8	16,107,878 - 16,567,490 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	8	15,965,390 - 16,050,160 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	8	16,009,758 - 16,094,671 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	8	16,009,760 - 16,094,595	NCBI
Celera	8	14,929,936 - 15,014,828 (-)	NCBI		Celera
Cytogenetic Map	8	p22	NCBI
HuRef	8	14,509,923 - 14,594,638 (-)	NCBI		HuRef
CHM1_1	8	16,167,312 - 16,251,899 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	8	16,374,329 - 16,459,913 (-)	NCBI		T2T-CHM13v2.0

Msr1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	8	39,996,284 - 40,095,790 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	8	40,034,726 - 40,095,714 (-)	Ensembl		GRCm39 Ensembl
GRCm38	8	39,543,232 - 39,642,750 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	8	39,581,685 - 39,642,673 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	8	40,667,054 - 40,728,032 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	8	41,102,269 - 41,141,495 (-)	NCBI		MGSCv36	mm8
Celera	8	42,254,529 - 42,315,500 (-)	NCBI		Celera
Cytogenetic Map	8	A4	NCBI
cM Map	8	23.89	NCBI

Msr1
(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_004955463	1,197,022 - 1,264,765 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955463	1,197,086 - 1,263,943 (+)	NCBI	ChiLan1.0	ChiLan1.0

MSR1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	8	12,091,543 - 12,175,927 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	8	12,088,873 - 12,175,927 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	8	15,335,795 - 15,421,472 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3

MSR1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	16	39,434,948 - 39,513,727 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	16	39,436,753 - 39,527,438 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	16	39,918,454 - 39,996,751 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	16	41,487,019 - 41,565,417 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	16	41,487,570 - 41,565,264 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	16	39,583,887 - 39,662,157 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	16	40,129,035 - 40,207,399 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	16	40,253,347 - 40,331,889 (-)	NCBI		UU_Cfam_GSD_1.0

Msr1
(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_024404943	39,750,600 - 39,814,340 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936573	5,328,526 - 5,388,901 (-)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936573	5,345,282 - 5,391,946 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

MSR1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	17	3,859,692 - 3,939,726 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	17	3,859,903 - 3,939,612 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	17	4,110,409 - 4,191,629 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

MSR1
(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	8	14,221,389 - 14,305,059 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	8	14,220,529 - 14,304,946 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666052	28,000,740 - 28,084,945 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Msr1
(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_004624839	694,032 - 770,254 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624839	694,149 - 769,322 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Msr1
383 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	22
Count of miRNA genes:	22
Interacting mature miRNAs:	22
Transcripts:	ENSRNOT00000017339
Prediction methods:	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 (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1600378	Arunc4	Aerobic running capacity QTL 4		0.03	exercise endurance trait (VT:0002332)	maximum distance run on treadmill (CMO:0001406)	16	380245	80345693	Rat
2312660	Bw95	Body weight QTL 95		0.05	inguinal fat pad mass (VT:0010424)	inguinal fat pad weight to body weight ratio (CMO:0001253)	16	832236	59492508	Rat
2312663	Slep9	Serum leptin concentration QTL 9		0.001	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	16	832236	59492508	Rat
2312666	Insul16	Insulin level QTL 16		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	16	832236	59492508	Rat
2312669	Stl23	Serum triglyceride level QTL 23		0.01	blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	16	832236	59492508	Rat
737826	Alc11	Alcohol consumption QTL 11	3.2		consumption behavior trait (VT:0002069)	ethanol drink intake rate (CMO:0001407)	16	4227609	60252231	Rat
70205	Gcr3	Gastric cancer resistance QTL 3	2.3		stomach morphology trait (VT:0000470)	stomach tumor depth of invasion (CMO:0001888)	16	17696791	82635055	Rat
70205	Gcr3	Gastric cancer resistance QTL 3	2.3		stomach morphology trait (VT:0000470)	stomach tumor diameter (CMO:0001889)	16	17696791	82635055	Rat
70205	Gcr3	Gastric cancer resistance QTL 3	2.3		stomach morphology trait (VT:0000470)	stomach tumor depth of invasion (CMO:0001888)	16	17696791	82635055	Rat
70205	Gcr3	Gastric cancer resistance QTL 3	2.3		stomach morphology trait (VT:0000470)	stomach tumor diameter (CMO:0001889)	16	17696791	82635055	Rat
70215	Niddm29	Non-insulin dependent diabetes mellitus QTL 29	3.54		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	16	19004435	75226532	Rat
2302057	Pia29	Pristane induced arthritis QTL 29	3.6	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)	16	21735975	66735975	Rat
8694453	Bw172	Body weight QTL 172	8.33	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	16	24325513	69325513	Rat
6903294	Stl30	Serum triglyceride level QTL 30	2.6	0.0013	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	16	25152793	70152793	Rat
1298529	Arunc1	Aerobic running capacity QTL 1	4		exercise endurance trait (VT:0002332)	maximum distance run on treadmill (CMO:0001406)	16	31951520	60148445	Rat
1578768	Stresp22	Stress response QTL 22	2.8		thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	16	35288870	80288870	Rat
2293690	Bss45	Bone structure and strength QTL 45	5.13	0.0001	lumbar vertebra morphology trait (VT:0010494)	lumbar vertebra cortical cross-sectional area (CMO:0001690)	16	37752156	82752156	Rat
2300163	Bmd64	Bone mineral density QTL 64	5.3	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	16	37752156	82752156	Rat
7205510	Activ5	Activity QTL 5	3.78	0.00028	locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	16	42396345	84729064	Rat
8694429	Bw164	Body weight QTL 164	5	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	16	52726464	84729064	Rat
8694364	Abfw7	Abdominal fat weight QTL 7	12.22	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	16	52726464	84729064	Rat
7411648	Foco22	Food consumption QTL 22	15	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	16	52726464	84729064	Rat

Markers in Region

L04275

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	16	52,761,611 - 52,761,754 (-)	MAPPER	mRatBN7.2
Rnor_6.0	16	56,855,484 - 56,855,626	NCBI	Rnor6.0
Rnor_5.0	16	56,554,428 - 56,554,570	UniSTS	Rnor5.0
RGSC_v3.4	16	56,307,067 - 56,307,209	UniSTS	RGSC3.4
Celera	16	50,649,092 - 50,649,234	UniSTS
Cytogenetic Map	16	q12.1	UniSTS

RH127715

Rat Assembly	Chr	Position (strand)	Source
Celera	16	50,678,418 - 50,678,630	UniSTS
Celera	5	164,343,501 - 164,343,713	UniSTS
Cytogenetic Map	5	q36	UniSTS
Cytogenetic Map	16	q12.1	UniSTS

AA900898

Rat Assembly	Chr	Position (strand)	Source
Celera	5	164,342,363 - 164,342,551	UniSTS
Celera	16	50,677,236 - 50,677,425	UniSTS
RH 3.4 Map	8	849.9	UniSTS
Cytogenetic Map	1	p11	UniSTS
Cytogenetic Map	16	q12.1	UniSTS
Cytogenetic Map	5	q36	UniSTS

UniSTS:496680

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_5.0	2	176,377,830 - 176,378,105	NCBI	Rnor5.0
Rnor_5.0	3	151,876,035 - 151,876,320	NCBI	Rnor5.0
Rnor_5.0	16	56,527,453 - 56,527,738	NCBI	Rnor5.0
RGSC_v3.4	1	32,051,429 - 32,051,703	UniSTS	RGSC3.4
RGSC_v3.4	16	56,334,152 - 56,334,436	UniSTS	RGSC3.4
Celera	16	50,676,178 - 50,676,462	UniSTS
Cytogenetic Map	16	q12.1	UniSTS
Cytogenetic Map	5	q36	UniSTS
Cytogenetic Map	1	p11	UniSTS

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	renal system	reproductive system	respiratory system	appendage
High
Medium			8	8	9	8						2
Low	2	30	49	33	10	33	8	8	8	33	31	9	8
Below cutoff	1	7						2	64	2	10

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001191939	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001411777	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006253206	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006253207	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039094773	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039094774	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473995	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ227774	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000283	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000017339 ⟹ ENSRNOP00000017339

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	16	52,717,732 - 52,799,676 (+)	Ensembl
Rnor_6.0 Ensembl	16	56,813,791 - 56,900,052 (-)	Ensembl

RefSeq Acc Id:

NM_001191939 ⟹ NP_001178868

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	16	52,734,046 - 52,799,305 (+)	NCBI
Rnor_6.0	16	56,818,085 - 56,885,064 (-)	NCBI
Rnor_5.0	16	56,516,982 - 56,597,180 (-)	NCBI
Celera	16	50,621,592 - 50,686,791 (+)	NCBI

Sequence:

show sequence

ATGATAGAGAAACAGAGGCTCTGTCCTCCTGAACCGGAGGACGCTGACTGCTACTCAGAATCTG
TGAAATTTGACGCACGTTCCATGACAGCATCCCTTCCTCACAACACTATAAATGGCTCCTCCGT
TCAGGAGAAACTGAAGTCCTTCAAAGTTGCCCTCGTCGCTCTCTACCTCCTTGTGTTTGCAGTA
CTAATACCTGTTGTTGGAATAGTAACAGCTCAGCTTGTGAATTGGGAAATGAAGAACTGCTTAG
TGGGTTCAGCTAACACAAGTGATACATCGCAAACTCTGACTGGAAAAGAAAACACCAGTAAAGC
AGAAATGGGATTTACAATTGCCATGGAACGCATGAAGGCCTTGGAGGAGAGAGTCCAAAGCATT
TCAGACTCAAAAGCTGGCCTTCTAGACACAGACCGCTTCCAGAACTTCAGCATGGCAACCGACC
AAAGACTTAATGATCTTCTTCTGCAGTTAAATTCCTTGATTTCATCAGTCCAGGAACATGGGGA
GTCCCTGGATGCAATTTCCAAGTCCTTGCAGAGTCTGAATACAACACTGCTTGATGTCCAGGTC
CATACAGAAACACTGAATGTCAAAGTCCGCGAATCTACAGCAAAGCAACAGGAGGACATCAGTA
AGTTGGAGGAACGTGTGCACAAAGTATCAGCAGAAATCCAGTCTGTGAAAGAAGAACAAGAGCA
TGTGGAACAGGAAGTAAAACAGGAAGTGAAAGTATTGAACAACATCACCAACGACCTCAGACTG
AAGGACTGGGAACACTCACAGACGCTGAAAAATATCACCTTAATTCAAGGGCCTCCTGGACCCC
CAGGTGAAAAGGGAGACAAGGGACTTACTGGACAAAGTGGTCCACCTGGTGTTCCAGGTGCAAG
AGGTCCTCCAGGTCCTAAAGGTGATCAGGGACCAGTTGGCTTCCCTGGTGGGCGAGGATACCCA
GGAGCACCAGGAAAGGCAGGGAGGTCAGGATTTCCTGGACCTAAAGGACAAAAGGGAGAAAAGG
GGCGTGCAGGAATATCAACCTCTCTTAAAACAGTTCGACTGGTTGATGGTAGCGGACCCCATGA
GGGCCGAGTAGAGATCTTCCACGAAGGCCAGTGGGGCACAATCTGTGATGATCGCTGGGATATA
CGAGCTGGACAAGTTGTCTGCCGGAGTCTAGGATACCAAGATGTTCTAACTGTGCACAAGAGAG
CTCACTTTGGACAAGGTACTGGTCCAATATGGCTGAATGAAGTGATGTGCTTTGGGAGAGAATC
GTCTATTGAAAACTGTAAAATCAGCAAATGGGGAGAATTAGGCTGTTCACATGCAGAAGATGCT
GGGGTCACTTGTACTTCATAA

hide sequence

RefSeq Acc Id:

XM_006253206 ⟹ XP_006253268

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	16	52,717,780 - 52,802,890 (+)	NCBI
Rnor_6.0	16	56,817,714 - 56,900,025 (-)	NCBI
Rnor_5.0	16	56,516,982 - 56,597,180 (-)	NCBI

Sequence:

show sequence

TAACTTGTGCATTGATGATAAGGCTATGAAACACAATTCAGAGAAAGATTTTCAACACACAACT
GTGTCATTTCCTTTCCCTGTGGGCCAGATGCTGAAATACTATGTGATAAAGATTTTAGGTTTCA
ATTGTAAAAAGAGGGAAGTGGACAAATCAGTGCTACCTTCATTACCAGCAATGACAAAAGAGAT
GATAGAGAAACAGAGGCTCTGTCCTCCTGAACCGGAGGACGCTGACTGCTACTCAGAATCTGTG
AAATTTGACGCACGTTCCATGACAGCATCCCTTCCTCACAACACTATAAATGGCTCCTCCGTTC
AGGAGAAACTGAAGTCCTTCAAAGTTGCCCTCGTCGCTCTCTACCTCCTTGTGTTTGCAGTACT
AATACCTGTTGTTGGAATAGTAACAGCTCAGCTTGTGAATTGGGAAATGAAGAACTGCTTAGTG
GGTTCAGCTAACACAAGTGATACATCGCAAACTCTGACTGGAAAAGAAAACACCAGTAAAGCAG
AAATGGGATTTACAATTGCCATGGAACGCATGAAGGCCTTGGAGGAGAGAGTCCAAAGCATTTC
AGACTCAAAAGCTGGCCTTCTAGACACAGACCGCTTCCAGAACTTCAGCATGGCAACCGACCAA
AGACTTAATGATCTTCTTCTGCAGTTAAATTCCTTGATTTCATCAGTCCAGGAACATGGGGAGT
CCCTGGATGCAATTTCCAAGTCCTTGCAGAGTCTGAATACAACACTGCTTGATGTCCAGGTCCA
TACAGAAACACTGAATGTCAAAGTCCGCGAATCTACAGCAAAGCAACAGGAGGACATCAGTAAG
TTGGAGGAACGTGTGCACAAAGTATCAGCAGAAATCCAGTCTGTGAAAGAAGAACAAGAGCATG
TGGAACAGGAAGTAAAACAGGAAGTGAAAGTATTGAACAACATCACCAACGACCTCAGACTGAA
GGACTGGGAACACTCACAGACGCTGAAAAATATCACCTTAATTCAAGGGCCTCCTGGACCCCCA
GGTGAAAAGGGAGACAAGGGACTTACTGGACAAAGTGGTCCACCTGGTGTTCCAGGTGCAAGAG
GTCCTCCAGGTCCTAAAGGTGATCAGGGACCAGTTGGCTTCCCTGGTGGGCGAGGATACCCAGG
AGCACCAGGAAAGGCAGGGAGGTCAGGATTTCCTGGACCTAAAGGACAAAAGGGAGAAAAGGGG
CGTGCAGGAATATCAACCTCTCTTAAAACAGTTCGACTGGTTGATGGTAGCGGACCCCATGAGG
GCCGAGTAGAGATCTTCCACGAAGGCCAGTGGGGCACAATCTGTGATGATCGCTGGGATATACG
AGCTGGACAAGTTGTCTGCCGGAGTCTAGGATACCAAGATGTTCTAACTGTGCACAAGAGAGCT
CACTTTGGACAAGGTACTGGTCCAATATGGCTGAATGAAGTGATGTGCTTTGGGAGAGAATCGT
CTATTGAAAACTGTAAAATCAGCAAATGGGGAGAATTAGGCTGTTCACATGCAGAAGATGCTGG
GGTCACTTGTACTTCATAATGTATCATATTTTCAGTTTCATTTATGAAATTGCTTTTGTAAAAC
TATTTTTGTTGCCCTGCTCTACTAAAATCATTTTAATAATAGTAAATGGACTCACAATATTGGT
AATAGAAAGGGAATATTTGAAATGAGTGGGAATAGGGTCTTAAACACGGCAAACTTTATGTCTA
TGGATAAAGGATTCAAACTTCTCACAATGGTTAATGTTGATTGTCAAATTGCCCAGAATTTACA
AATGCCAAGAAACACAAAAATATGGTTATTCATATTAGGGCATTTCCAGAGAGGTTTAACTGAA
ATAGAATCATTGGTAGCATCGTTCATGGGCTTGAGATGCTGACTGAAATAAAAGCAGTGGGGCA
CCATCA

hide sequence

RefSeq Acc Id:

XM_006253207 ⟹ XP_006253269

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	16	52,717,789 - 52,762,116 (+)	NCBI
Rnor_6.0	16	56,852,696 - 56,900,019 (-)	NCBI
Rnor_5.0	16	56,516,982 - 56,597,180 (-)	NCBI

Sequence:

show sequence

GTGCATTGATGATAAGGCTATGAAACACAATTCAGAGAAAGATTTTCAACACACAACTGTGTCA
TTTCCTTTCCCTGTGGGCCAGATGCTGAAATACTATGTGATAAAGATTTTAGGTTTCAATTGTA
AAAAGAGGGAAGTGGACAAATCAGTGCTACCTTCATTACCAGCAATGACAAAAGAGATGATAGA
GAAACAGAGGCTCTGTCCTCCTGAACCGGAGGACGCTGACTGCTACTCAGAATCTGTGAAATTT
GACGCACGTTCCATGACAGCATCCCTTCCTCACAACACTATAAATGGCTCCTCCGTTCAGGAGA
AACTGAAGTCCTTCAAAGTTGCCCTCGTCGCTCTCTACCTCCTTGTGTTTGCAGTACTAATACC
TGTTGTTGGAATAGTAACAGCTCAGCTTGTGAATTGGGAAATGAAGAACTGCTTAGTGGGTTCA
GCTAACACAAGTGATACATCGCAAACTCTGACTGGAAAAGAAAACACCAGTAAAGCAGAAATGG
GATTTACAATTGCCATGGAACGCATGAAGGCCTTGGAGGAGAGAGTCCAAAGCATTTCAGACTC
AAAAGCTGGCCTTCTAGACACAGACCGCTTCCAGAACTTCAGCATGGCAACCGACCAAAGACTT
AATGATCTTCTTCTGCAGTTAAATTCCTTGATTTCATCAGTCCAGGAACATGGGGAGTCCCTGG
ATGCAATTTCCAAGTCCTTGCAGAGTCTGAATACAACACTGCTTGATGTCCAGGTCCATACAGA
AACACTGAATGTCAAAGTCCGCGAATCTACAGCAAAGCAACAGGAGGACATCAGTAAGTTGGAG
GAACGTGTGCACAAAGTATCAGCAGAAATCCAGTCTGTGAAAGAAGAACAAGAGCATGTGGAAC
AGGAAGTAAAACAGGAAGTGAAAGTATTGAACAACATCACCAACGACCTCAGACTGAAGGACTG
GGAACACTCACAGACGCTGAAAAATATCACCTTAATTCAAGGGCCTCCTGGACCCCCAGGTGAA
AAGGGAGACAAGGGACTTACTGGACAAAGTGGTCCACCTGGTGTTCCAGGTGCAAGAGGTCCTC
CAGGTCCTAAAGGTGATCAGGGACCAGTTGGCTTCCCTGGTGGGCGAGGATACCCAGGAGCACC
AGGAAAGGCAGGGAGGTCAGGATTTCCTGGACCTAAAGGACAAAAGGGAGAAAAGGGGCGTGCA
GGAATATCAATATAACTCCCTGTTCCTATTGGGGCAAGACCCTTTTAAGATCAGCTGGGCTGGG
CAGAGCACTCTACTATCATCTGCTTAAAGACATTTCACCTCTGGACAAGTCATCCGCACAAGTG
ACTGGGATCCTTTTGCAACTCCTCCAAATGACATTGGTTCCTGTGTCATGTCATGCCTGGCTTC
TCCATGACTTCCTCTTCTGACCCTGGGTGCTGTTTGGGCCTCCAATGCCAAAAGTACATCATTG
TGCACTCTGCTACCTTTTCCCCATCCCCTGTCACCCTTTACCTAGATGCCCCACATGTTGACTA
GAGGAATGTTCCTGCCTCCTTCAGACCTTCTGCTGTTCCCCTCACCTAATTGTGCAGAATCCCA
TTGGATTCTAGGGAAATCTTAACTGAATATTGATTGATTGAATATTGGTTCTTGAAATGTAGGA
TGTTTTCCTCAAATACAAATAGGGATGGGAATAGAGGTCTGTCCATCCATTCATTCACTAATTC
ATTTAGCATCAGTTTATTGGGTACCAATTGGAGCCCAACTTAACAGCTATAAATATGTGTTTCC
TAACTTTATAAAACTAATTACCCTTAGAAGATACAAATAGGGGTTGGGGATTTAGCTCAGTGGT
AGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTCGATCCCCAGCTCCAAAAAAAAAAAAAAA
GAAGAAGATACAAATATACCAGTTATAAACAAACCAGAGAGAACTATCCCAGGAAAAAATAAAG
CTATATAGATATTGAGAGGAGATAAATAACTTTAGTACTCTAGTATATTAAAAATAGCTTTATT
TGCATTGCTTGTTTCACTTTTCCAGCTTTTTATTCCCCAAATCGTGTGTGTGTGTATGTGTGTG
TCTGTTTATGTAAATCAAACTTTACTTCAATAATTGCTTATCGATTTCAAACAAAAACATTTTG
ATCATAAAAAAAAGCAATGCTTGTTTACTTTCTAGAAAGCTCTTTGTATTTGCTTACCTTTTAT
ATTTTAAGTATATATACTGGGAAATAAATATTGCAGTAGAAATGGAGATATTTTGTATAAGTTA
TAATAAAGAAGAAAATTCAAAACAAGAGAATGAAAATAAAATGCAGTAATAATAAAGATACAAT
ATCCCATGTTGTTACCTCTCTGGGAATAAACAGAGCATATTTTACAGGACTTCATGCTTTGTGC
TTTAACACAAACCCTAAGGTCCACAACACTAAGATAGTAGCAGATTACTAATTGTATGCCTGGG
TATATCTCATTTTCCTATTTTATGCTCTGCTAATGATCATGTTAATTCCTACCTCACAGGGTTG
TTGTGAGGACCAAAAGGTGTGTGAAGATGTCTGTAAAGTCATGAAGACCTTTTAAAGTCTTAAG
AACAGTTCACAGCAGTCTTTTTTAACAGAACATCTGTTCCTTGTTTGTATTATGCAGTCATGTT
ACATCCCTAATCATGTTAGGACCGAATGAAAAACAGAAATGGCAGGAGCCAAATGTATGTCTTG
AATAAAATGAGAAGTGTTGTTGAATAAGACAAGATGTCTATGTTATATGAAGCAATTGCATGTG
TGCCCAGGACACAAGGCAGTGAGTTTGTCTTAGCAAAGCAGAAGAGTGTTAGTTATAAGAAAGA
GAGGCAGCTAAACCAGAGGCCAGATATGTTGACAGGGGTCAGAACGAAATGTCAAACTAATAAA
ACAAGTCTAGGCTGTGCAGGACGGAACGTGAGCCCAAGACATTTCTGTTGAGCACGTTCTAAAA
AGGACAGCTACAAATTGGTACTGTTACTGGTACAAGGCTGTGTCTCTGCCTTCATGCCTCCAAA
ATATTATGAAATATGGCCCTGAGGAACAAGAAAGATGGAATTAGTGATTCTGGGAGTCTGCAAT
ACTAGCAGACTGGTTATTCTGTGCAAACATCTAGAGAAACCTGGATTTAAGCCTGTGGCTTAAT
TGGCCTGTGGTATGGAGGGTGGGTGACTCTTTTCTTAGGCCACCAGCATTACTGTGGACAATTC
TGGCATCATACAGAATGACCTTGATCAGATGTGCTGGCAGGCAAATTGTAGAAATTCCAGTCCT
TAAGTCATTTTACATCCAAAACTGCACTTATAAGGTTAAGTGTGGGATATTAACCTGAACTTTT
TAAATTAGTGAAGAAGGCTCTGTGTTTTTCTTTAGATAAAAACAGATGCCGAATGCTCTGTTCA
TGAGTATCAATTATCTAACCTTTGATAATGTATAATGAAAAGTGAAAAATGGCATGTTCCATTG
CCTTGCTAGCTAGAAAGGGTGTTTCAATCAAGCAAGGGAACCATGTAAGTAAACACAGTGTGAG
GCACCGTTCAAAAGAGTCCTGTTGCTTATCTGTGGTGTGTCAGCATGCTCTACTTGAGAACAAG
AGAGATAGGAAGTAAATTTTGGGTTATTTACTTTTGAACCTCATAAAATGATATGAAAAATAAT
ATAATTGCTTTTATTTATACTGAAAATTCAATTGATCTTAAATTGACTTCTGATTTCTGAAAAT
ACTCAGTTGATTAAAGTTAAACCCTTCTCCCATCATTTGCTAATTATATTAATGGATATTCAGA
GGTCACTTGTTGTATATCAGGTGCTTTTGGTGCATTTTAAACCTAGTGCTCAGAAAGCCAGTGG
GGTAAATGCTATTGCTATCAACATTTAAGGAGCTGGAATCTAAGGTGAACTTCTAATAATGGAA
AGCAGCACAACCCAAAGCCATGCCTCTCAGTTTCCCAATTCTTGTGGCTCTGTAATGCTTCCAC
ACTAGTCAACTATTTTATGCATAGAAACCCTGCAGATATTAAATATGGAGGTGGAGAGAGTAGA
TTTGTAATTAGTAATTTTATTTTCCAGAATGAGCCTTATAAATTGGAAGGTCTCAAGGAGCTAA
AAATGTATAGATTAGGTCAAATTCCAAAAAGTATACTACTGCGTCATCTGTGTTTATGTTTCCG
CCATCATAACTACTGTGTGTATTGCTTGCCTTACCCACCTCAAGTCAATTACTCAGACACACTG
TCTTCCTGGAAGTGCTCTCAAGACTTCCATTATCACTAATAAAAACTACTTATGTGCACCTTGG

hide sequence

RefSeq Acc Id:

XM_039094773 ⟹ XP_038950701

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	16	52,717,775 - 52,791,318 (+)	NCBI

RefSeq Acc Id:

XM_039094774 ⟹ XP_038950702

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	16	52,742,195 - 52,791,318 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001178868	(Get FASTA)	NCBI Sequence Viewer
	NP_001398706	(Get FASTA)	NCBI Sequence Viewer
	XP_006253268	(Get FASTA)	NCBI Sequence Viewer
	XP_006253269	(Get FASTA)	NCBI Sequence Viewer
	XP_038950701	(Get FASTA)	NCBI Sequence Viewer
	XP_038950702	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL78809	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001178868 ⟸ NM_001191939

- Sequence:

show sequence

MIEKQRLCPPEPEDADCYSESVKFDARSMTASLPHNTINGSSVQEKLKSFKVALVALYLLVFAV
LIPVVGIVTAQLVNWEMKNCLVGSANTSDTSQTLTGKENTSKAEMGFTIAMERMKALEERVQSI
SDSKAGLLDTDRFQNFSMATDQRLNDLLLQLNSLISSVQEHGESLDAISKSLQSLNTTLLDVQV
HTETLNVKVRESTAKQQEDISKLEERVHKVSAEIQSVKEEQEHVEQEVKQEVKVLNNITNDLRL
KDWEHSQTLKNITLIQGPPGPPGEKGDKGLTGQSGPPGVPGARGPPGPKGDQGPVGFPGGRGYP
GAPGKAGRSGFPGPKGQKGEKGRAGISTSLKTVRLVDGSGPHEGRVEIFHEGQWGTICDDRWDI
RAGQVVCRSLGYQDVLTVHKRAHFGQGTGPIWLNEVMCFGRESSIENCKISKWGELGCSHAEDA
GVTCTS

hide sequence

RefSeq Acc Id:	XP_006253268 ⟸ XM_006253206
- Peptide Label:	isoform X2
- UniProtKB:	D3ZDS2 (UniProtKB/TrEMBL)
- Sequence:	show sequence MKHNSEKDFQHTTVSFPFPVGQMLKYYVIKILGFNCKKREVDKSVLPSLPAMTKEMIEKQRLCP PEPEDADCYSESVKFDARSMTASLPHNTINGSSVQEKLKSFKVALVALYLLVFAVLIPVVGIVT AQLVNWEMKNCLVGSANTSDTSQTLTGKENTSKAEMGFTIAMERMKALEERVQSISDSKAGLLD TDRFQNFSMATDQRLNDLLLQLNSLISSVQEHGESLDAISKSLQSLNTTLLDVQVHTETLNVKV RESTAKQQEDISKLEERVHKVSAEIQSVKEEQEHVEQEVKQEVKVLNNITNDLRLKDWEHSQTL KNITLIQGPPGPPGEKGDKGLTGQSGPPGVPGARGPPGPKGDQGPVGFPGGRGYPGAPGKAGRS GFPGPKGQKGEKGRAGISTSLKTVRLVDGSGPHEGRVEIFHEGQWGTICDDRWDIRAGQVVCRS LGYQDVLTVHKRAHFGQGTGPIWLNEVMCFGRESSIENCKISKWGELGCSHAEDAGVTCTS hide sequence

RefSeq Acc Id:

XP_006253269 ⟸ XM_006253207

- Peptide Label:

isoform X4

- Sequence:

show sequence

MKHNSEKDFQHTTVSFPFPVGQMLKYYVIKILGFNCKKREVDKSVLPSLPAMTKEMIEKQRLCP
PEPEDADCYSESVKFDARSMTASLPHNTINGSSVQEKLKSFKVALVALYLLVFAVLIPVVGIVT
AQLVNWEMKNCLVGSANTSDTSQTLTGKENTSKAEMGFTIAMERMKALEERVQSISDSKAGLLD
TDRFQNFSMATDQRLNDLLLQLNSLISSVQEHGESLDAISKSLQSLNTTLLDVQVHTETLNVKV
RESTAKQQEDISKLEERVHKVSAEIQSVKEEQEHVEQEVKQEVKVLNNITNDLRLKDWEHSQTL
KNITLIQGPPGPPGEKGDKGLTGQSGPPGVPGARGPPGPKGDQGPVGFPGGRGYPGAPGKAGRS
GFPGPKGQKGEKGRAGISI

hide sequence

RefSeq Acc Id:

ENSRNOP00000017339 ⟸ ENSRNOT00000017339

RefSeq Acc Id:	XP_038950701 ⟸ XM_039094773
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038950702 ⟸ XM_039094774
- Peptide Label:	isoform X3

Protein Domains

SRCR

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZDS2-F1-model_v2	AlphaFold	D3ZDS2	1-509	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1564316	AgrOrtholog
BioCyc Gene	G2FUF-11236	BioCyc
Ensembl Genes	ENSRNOG00000012779	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000017339	ENTREZGENE
	ENSRNOP00000017339.7	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000017339	ENTREZGENE
	ENSRNOT00000017339.8	UniProtKB/TrEMBL
Gene3D-CATH	3.10.250.10	UniProtKB/TrEMBL
InterPro	Collagen	UniProtKB/TrEMBL
	Macro_scav_rcpt	UniProtKB/TrEMBL
	SRCR-like_dom_sf	UniProtKB/TrEMBL
	Srcr_rcpt	UniProtKB/TrEMBL
	Srcr_rcpt-rel	UniProtKB/TrEMBL
NCBI Gene	498638	ENTREZGENE
PANTHER	PTHR19331:SF440	UniProtKB/TrEMBL
	SCAVENGER RECEPTOR DOMAIN-CONTAINING	UniProtKB/TrEMBL
Pfam	Collagen	UniProtKB/TrEMBL
	Macscav_rec	UniProtKB/TrEMBL
	SRCR	UniProtKB/TrEMBL
PhenoGen	Msr1	PhenoGen
PRINTS	MACSCAVRCPTR	UniProtKB/TrEMBL
	SPERACTRCPTR	UniProtKB/TrEMBL
PROSITE	SRCR_1	UniProtKB/TrEMBL
	SRCR_2	UniProtKB/TrEMBL
SMART	SM00202	UniProtKB/TrEMBL
Superfamily-SCOP	Srcr_receptor	UniProtKB/TrEMBL
UniProt	D3ZDS2	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-03-06	Msr1	macrophage scavenger receptor 1	RGD1564316_predicted	similar to scavenger receptor type A SR-A (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-07	RGD1564316_predicted	similar to scavenger receptor type A SR-A (predicted)	LOC498638	similar to scavenger receptor type A SR-A	Symbol and Name status set to approved	1299863	APPROVED
2006-02-09	LOC498638	similar to scavenger receptor type A SR-A			Symbol and Name status set to provisional	70820	PROVISIONAL

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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

Imported Annotations - KEGG (archival)