Scarb1 (scavenger receptor class B member 1)

Gene: Scarb1 (scavenger receptor class B member 1) Ictidomys tridecemlineatus

Analyze

Symbol:

Scarb1

Name:

scavenger receptor class B member 1

RGD ID:

12613382

Description:

ENCODES a protein that exhibits identical protein binding (ortholog); phosphatidylserine binding (ortholog); INVOLVED IN aflatoxin metabolic process (ortholog); androgen biosynthetic process (ortholog); blood vessel endothelial cell migration (ortholog); PARTICIPATES IN retinol metabolic pathway; reverse cholesterol transport pathway; ASSOCIATED WITH Animal Mammary Neoplasms (ortholog); cannabis abuse (ortholog); carcinoma (ortholog); FOUND IN apical plasma membrane (ortholog); basolateral plasma membrane (ortholog); cell surface (ortholog)

Type:

protein-coding

RefSeq Status:

RGD Orthologs

Alliance Genes

More Info

more info ...

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_024405118	158,927,028 - 158,948,613 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936558	530,828 - 552,892 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936558	530,828 - 555,098 (+)	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

Animal Mammary Neoplasms (ISO)

cannabis abuse (ISO)

carcinoma (ISO)

Chemical and Drug Induced Liver Injury (ISO)

Cocaine-Related Disorders (ISO)

Coronary Disease (ISO)

end stage renal disease (ISO)

Experimental Mammary Neoplasms (ISO)

Follicular Cyst (ISO)

genetic disease (ISO)

hepatitis C (ISO)

Hypercholesterolemia (ISO)

metabolic dysfunction-associated steatotic liver disease (ISO)

phencyclidine abuse (ISO)

renal cell carcinoma (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

adhesion of symbiont to host (IEA)

aflatoxin metabolic process (ISO)

androgen biosynthetic process (ISO)

blood vessel endothelial cell migration (IEA,ISO)

carotenoid transport (IEA)

cholesterol catabolic process (IEA,ISO)

cholesterol efflux (IEA)

cholesterol homeostasis (IEA)

cholesterol import (IEA)

cholesterol transport (IEA,ISO)

detection of lipopolysaccharide (IEA)

endothelial cell proliferation (IEA,ISO)

high-density lipoprotein particle clearance (IEA)

high-density lipoprotein particle remodeling (IEA)

intestinal lipid absorption (IEA,ISO)

lipid transport (ISO)

lipopolysaccharide transport (IEA)

lipopolysaccharide-mediated signaling pathway (IEA)

low-density lipoprotein particle clearance (IEA)

phagocytosis, recognition (ISO)

phospholipid transport (IEA)

plasma lipoprotein particle clearance (IEA)

positive regulation of cholesterol storage (IEA)

positive regulation of triglyceride biosynthetic process (IEA)

recognition of apoptotic cell (IEA)

regulation of phagocytosis (ISO)

regulation of phosphatidylcholine catabolic process (IEA)

response to vitamin B3 (ISO)

reverse cholesterol transport (IEA)

transcytosis (ISO)

triglyceride homeostasis (IEA)

vitamin transmembrane transport (IEA)

Cellular Component

apical plasma membrane (ISO)

basolateral plasma membrane (ISO)

caveola (IEA)

cell surface (IEA,ISO)

cytoplasm (IEA)

intracellular membrane-bounded organelle (IEA)

lysosome (IEA)

membrane (IEA)

microvillus membrane (ISO)

plasma membrane (IEA)

Molecular Function

amyloid-beta binding (IEA)

apolipoprotein A-I binding (IEA)

apolipoprotein binding (IEA)

high-density lipoprotein particle binding (IEA)

high-density lipoprotein particle receptor activity (IEA)

identical protein binding (ISO)

lipid binding (IEA)

lipopolysaccharide binding (IEA)

lipopolysaccharide immune receptor activity (IEA)

low-density lipoprotein particle binding (IEA)

phosphatidylserine binding (ISO)

protein binding (ISO)

scavenger receptor activity (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

retinol metabolic pathway (ISO)

reverse cholesterol transport pathway (ISO)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

Scarb1
(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	158,927,028 - 158,948,613 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936558	530,828 - 552,892 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936558	530,828 - 555,098 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SCARB1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	12	124,776,856 - 124,863,864 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	12	124,776,856 - 124,882,668 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	12	125,261,402 - 125,348,410 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	12	123,828,127 - 123,914,472 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	12	123,787,055 - 123,873,214	NCBI
Celera	12	124,862,283 - 124,949,187 (-)	NCBI		Celera
Cytogenetic Map	12	q24.31	NCBI
HuRef	12	122,224,152 - 122,310,029 (-)	NCBI		HuRef
CHM1_1	12	125,083,775 - 125,169,604 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	12	124,782,134 - 124,869,001 (-)	NCBI		T2T-CHM13v2.0

Scarb1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	125,354,151 - 125,418,082 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	125,354,151 - 125,418,158 (-)	Ensembl		GRCm39 Ensembl
GRCm38	5	125,277,087 - 125,341,094 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	125,277,087 - 125,341,094 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	125,757,460 - 125,821,444 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	5	125,566,069 - 125,630,053 (-)	NCBI		MGSCv36	mm8
Celera	5	122,296,944 - 122,361,197 (-)	NCBI		Celera
Cytogenetic Map	5	G1.1	NCBI
cM Map	5	64.11	NCBI

Scarb1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	12	36,957,302 - 37,023,982 (+)	NCBI		GRCr8
mRatBN7.2	12	31,296,143 - 31,362,649 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	31,296,156 - 31,362,647 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	12	32,468,363 - 32,534,776 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	12	33,079,673 - 33,146,089 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	12	32,131,509 - 32,197,925 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	12	36,694,952 - 36,761,445 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	36,694,960 - 36,761,455 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	12	38,572,152 - 38,638,465 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	32,390,183 - 32,457,661 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	12	32,253,570 - 32,321,047 (+)	NCBI
Celera	12	32,988,597 - 33,054,666 (+)	NCBI		Celera
Cytogenetic Map	12	q15	NCBI

Scarb1
(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_004955482	4,813,955 - 4,837,392 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955482	4,813,502 - 4,836,479 (+)	NCBI	ChiLan1.0	ChiLan1.0

SCARB1
(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	132,858,215 - 132,987,046 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	12	132,782,925 - 132,944,486 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	12	122,293,803 - 122,455,314 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	12	126,651,077 - 126,698,506 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	12	126,659,532 - 126,694,767 (-)	Ensembl	panpan1.1		panPan2

SCARB1
(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	5,035,797 - 5,122,383 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	26	5,049,407 - 5,121,468 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	26	5,195,714 - 5,282,186 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	26	5,282,168 - 5,368,989 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	26	5,295,032 - 5,368,981 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	26	5,217,039 - 5,303,430 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	26	5,308,627 - 5,394,876 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	26	5,260,548 - 5,347,101 (+)	NCBI		UU_Cfam_GSD_1.0

SCARB1
(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	28,301,294 - 28,393,568 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	28,301,421 - 28,393,568 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	30,050,898 - 30,093,735 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SCARB1
(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	120,134,485 - 120,223,512 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	11	120,134,874 - 120,216,904 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666037	125,058,937 - 125,145,319 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Scarb1
(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_004624747	23,973,648 - 24,010,820 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624747	23,970,782 - 24,010,683 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_021729339	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000177	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSTOT00000026795 ⟹ ENSSTOP00000018988

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936558	530,828 - 552,892 (+)	Ensembl

RefSeq Acc Id:

XM_021729339 ⟹ XP_021585014

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405118	158,927,028 - 158,948,613 (-)	NCBI
SpeTri2.0	NW_004936558	530,828 - 555,098 (+)	NCBI

Sequence:

show sequence

ATGCAGGACCCTCCTGATCGGCCGCCTTCCCATCCACAGAACGTGCGCATCGACCCCAGCAGCC
TGTCCTTCAGCATGTGGAAGGAGATCCCCGTGCCCTTCTACCTGTCTATCTACTTCTTCGAGGT
GCTCAACCCCGAGGAGATACTGAAGGGCGAGAAGCCGGAGGTGCAGGAGCGTGGGCCCTACGTG
TACAGAGAATTCAGGCACAAGATCAACATCACCTTCAACAACAACGACACGGTGTCCTTCCGGG
AGCACCGCAGCTTCCAGTTCCAGCCCGCCAAGTCCCGAGGCTCCGAGAGCGACTACATCGTCCT
GCCCAACATCCTGGTCCTGGGTGCTGCGATGATGATGGAGAACAGGCCCATGAGTCTGAAGCTG
ATGATGACCTTGGCGTTCAGCACCCTGGGGGAGCGAGCCTTCATGAACCGCACCGTGGGCGAGA
TCATGTGGGGCTACGATGACCCCCTCGTGAATCTCATCAACAAGTACTTCCCAGACATGCTCCC
CTTGAAGGGCAAGTTCGGGTTGTTTGCTGAGATGAACAACTCGGACTCGGGGGTCTTCACGGTC
TTCACAGGGGTCAAGGACTTCAGCAGAATTCACCTCGTGGACAAGTGGAATGGGCTGAGCAAGG
TCAACTTCTGGCATTCGGATCAGTGCAACATGATCAATGGAACTTCCGGGCAAATGTGGGCACC
CTTCATGACCCCCGAGTCCTCGCTGGAGTTCTATAGCCCTGAGGCTTGCAGGTCCATGAAGCTC
ATCTACCAGGAGCCGGGGATGTTTCAGGGCATCCCCACCTATCGCTTCGTGGCCCCCAAAACCT
TATTTGCCAACGGGTCAGTCTACCCGCCCAACGAAGGCTTCTGCCCGTGCCTGGAGTCCGGCAT
TCAGAACGTCAGCACCTGCAGGTTCGGTGCACCCCTGTTCCTCTCCCAGCCTCACTTCCTCAAC
GCCGACCCCGTCCTGGCAGAAGCGGTGGCCGGGCTGCACCCTGACCCGGAGGAGCACTCCCTGT
TCCTGGACGTCCACCCGGTCACGGGGATCCCCATGAACTGCTCTGTGAAGCTGCAGCTGAGCAT
CTACGTCAAGTCCATCAAAGGCATCGGACAAACCGGGAAGATCCAGCCTGTGGTGCTGCCACTG
ATGTGGTTTGGAGAGGCCCTGCAAGGTCTTCTGGGAAATGTAGTCTCACCGAGCGCACCAAGGG
AAGGTGGGCGCCTGGACCCTGCTTCGCCAGAGGCCGGATGA

hide sequence

Protein Sequences


Protein RefSeqs	XP_021585014	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000018988.1
GenBank Protein	KAG3279188	(Get FASTA)	NCBI Sequence Viewer
	KAG3279189	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_021585014 ⟸ XM_021729339

- UniProtKB:

I3N3P2 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MQDPPDRPPSHPQNVRIDPSSLSFSMWKEIPVPFYLSIYFFEVLNPEEILKGEKPEVQERGPYV
YREFRHKINITFNNNDTVSFREHRSFQFQPAKSRGSESDYIVLPNILVLGAAMMMENRPMSLKL
MMTLAFSTLGERAFMNRTVGEIMWGYDDPLVNLINKYFPDMLPLKGKFGLFAEMNNSDSGVFTV
FTGVKDFSRIHLVDKWNGLSKVNFWHSDQCNMINGTSGQMWAPFMTPESSLEFYSPEACRSMKL
IYQEPGMFQGIPTYRFVAPKTLFANGSVYPPNEGFCPCLESGIQNVSTCRFGAPLFLSQPHFLN
ADPVLAEAVAGLHPDPEEHSLFLDVHPVTGIPMNCSVKLQLSIYVKSIKGIGQTGKIQPVVLPL
MWFGEALQGLLGNVVSPSAPREGGRLDPASPEAG

hide sequence

RefSeq Acc Id:

ENSSTOP00000018988 ⟸ ENSSTOT00000026795

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000025295	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000026795.2	UniProtKB/TrEMBL
InterPro	CD36_fam	UniProtKB/TrEMBL
NCBI Gene	Scarb1	ENTREZGENE
PANTHER	PTHR11923	UniProtKB/TrEMBL
	SCAVENGER RECEPTOR CLASS B MEMBER 1	UniProtKB/TrEMBL
Pfam	CD36	UniProtKB/TrEMBL
PRINTS	CD36FAMILY	UniProtKB/TrEMBL
UniProt	I3N3P2	ENTREZGENE, UniProtKB/TrEMBL

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

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

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

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

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