SCARF1 (scavenger receptor class F member 1) - Rat Genome Database

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Gene: SCARF1 (scavenger receptor class F member 1) Canis lupus familiaris
Analyze
Symbol: SCARF1
Name: scavenger receptor class F member 1
RGD ID: 12340451
Description: ENCODES a protein that exhibits low-density lipoprotein particle binding (inferred); scavenger receptor activity (inferred); INVOLVED IN dendrite development (ortholog); FOUND IN membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1945,782,653 - 45,793,294 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl945,783,206 - 45,793,177 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha944,933,586 - 44,944,220 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0946,609,769 - 46,620,401 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl946,610,304 - 46,621,251 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1945,379,865 - 45,390,497 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0945,674,409 - 45,685,042 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0945,728,842 - 45,739,477 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
membrane  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
SCARF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1945,782,653 - 45,793,294 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl945,783,206 - 45,793,177 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha944,933,586 - 44,944,220 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0946,609,769 - 46,620,401 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl946,610,304 - 46,621,251 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1945,379,865 - 45,390,497 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0945,674,409 - 45,685,042 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0945,728,842 - 45,739,477 (-)NCBIUU_Cfam_GSD_1.0
SCARF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38171,633,858 - 1,645,732 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl171,633,858 - 1,645,744 (-)EnsemblGRCh38hg38GRCh38
GRCh37171,537,152 - 1,549,026 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36171,483,902 - 1,495,791 (-)NCBINCBI36Build 36hg18NCBI36
Build 34171,483,902 - 1,495,791NCBI
Celera171,552,503 - 1,564,397 (-)NCBICelera
Cytogenetic Map17p13.3NCBI
HuRef171,436,503 - 1,448,457 (-)NCBIHuRef
CHM1_1171,545,929 - 1,557,853 (-)NCBICHM1_1
T2T-CHM13v2.0171,522,663 - 1,534,522 (-)NCBIT2T-CHM13v2.0
Scarf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391175,404,310 - 75,417,408 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1175,404,366 - 75,417,408 (+)EnsemblGRCm39 Ensembl
GRCm381175,513,489 - 75,526,582 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1175,513,540 - 75,526,582 (+)EnsemblGRCm38mm10GRCm38
MGSCv371175,327,043 - 75,340,082 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361175,329,736 - 75,342,775 (+)NCBIMGSCv36mm8
Celera1183,021,949 - 83,035,559 (+)NCBICelera
Cytogenetic Map11B5NCBI
cM Map1145.92NCBI
Scarf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81060,857,494 - 60,869,795 (+)NCBIGRCr8
mRatBN7.21060,359,213 - 60,371,516 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1060,359,197 - 60,371,516 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1065,006,367 - 65,018,627 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01064,511,795 - 64,524,055 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01059,974,364 - 59,986,623 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01063,662,967 - 63,683,916 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1063,662,986 - 63,670,639 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01064,331,642 - 64,343,951 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41062,835,546 - 62,847,856 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11062,849,164 - 62,860,326 (+)NCBI
Celera1059,387,539 - 59,399,835 (+)NCBICelera
Cytogenetic Map10q24NCBI
Scarf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554811,535,194 - 1,546,912 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554811,534,894 - 1,547,427 (+)NCBIChiLan1.0ChiLan1.0
SCARF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2199,206,242 - 9,218,568 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11711,172,416 - 11,185,071 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0171,618,216 - 1,631,429 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1171,513,997 - 1,528,284 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl171,513,997 - 1,528,287 (-)Ensemblpanpan1.1panPan2
Scarf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560244,887,677 - 44,897,843 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365387,764,037 - 7,776,785 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365387,764,576 - 7,775,844 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SCARF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1247,845,555 - 47,856,401 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11247,844,732 - 47,860,443 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21249,730,684 - 49,741,908 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SCARF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1161,303,484 - 1,317,010 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl161,304,378 - 1,316,678 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605920,664,735 - 20,676,145 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Scarf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247864,338,711 - 4,352,901 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247864,336,084 - 4,353,131 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SCARF1
102 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 1
Low 4 5 22 6 6 6 6 2 10 9 6
Below cutoff 1 4 2 8

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_022423450 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022423451 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038486616 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038548471 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038548472 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038548473 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038612412 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038612413 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038612414 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038612766 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038677687 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038677688 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038677689 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_848891 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000094 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000313 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000044715   ⟹   ENSCAFP00000039302
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl945,783,206 - 45,793,177 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845025845   ⟹   ENSCAFP00845020365
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl946,610,304 - 46,621,251 (-)Ensembl
RefSeq Acc Id: XM_022423451   ⟹   XP_022279159
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1945,783,817 - 45,793,196 (-)NCBI
Dog10K_Boxer_Tasha944,934,870 - 44,944,220 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038486616   ⟹   XP_038342544
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1945,379,865 - 45,390,497 (-)NCBI
RefSeq Acc Id: XM_038548471   ⟹   XP_038404399
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0945,728,842 - 45,739,477 (-)NCBI
RefSeq Acc Id: XM_038548472   ⟹   XP_038404400
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0945,728,842 - 45,739,477 (-)NCBI
RefSeq Acc Id: XM_038548473   ⟹   XP_038404401
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0945,730,126 - 45,739,477 (-)NCBI
RefSeq Acc Id: XM_038612412   ⟹   XP_038468340
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0945,674,409 - 45,685,042 (-)NCBI
RefSeq Acc Id: XM_038612413   ⟹   XP_038468341
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0945,674,409 - 45,685,042 (-)NCBI
RefSeq Acc Id: XM_038612414   ⟹   XP_038468342
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0945,675,693 - 45,685,042 (-)NCBI
RefSeq Acc Id: XM_038612766   ⟹   XP_038468694
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha944,933,586 - 44,944,220 (-)NCBI
RefSeq Acc Id: XM_038677687   ⟹   XP_038533615
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0946,609,769 - 46,620,401 (-)NCBI
RefSeq Acc Id: XM_038677688   ⟹   XP_038533616
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0946,609,769 - 46,620,401 (-)NCBI
RefSeq Acc Id: XM_038677689   ⟹   XP_038533617
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0946,611,053 - 46,620,401 (-)NCBI
RefSeq Acc Id: XM_848891   ⟹   XP_853984
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1945,782,653 - 45,793,294 (-)NCBI
Dog10K_Boxer_Tasha944,933,586 - 44,944,220 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_853984   ⟸   XM_848891
- Peptide Label: isoform X1
- UniProtKB: A0A8C0NFS3 (UniProtKB/TrEMBL),   A0A8I3NQQ0 (UniProtKB/TrEMBL),   A0A8C0PV90 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_022279159   ⟸   XM_022423451
- Peptide Label: isoform X3
- UniProtKB: A0A8C0K7T3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000039302   ⟸   ENSCAFT00000044715
RefSeq Acc Id: XP_038342544   ⟸   XM_038486616
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038468341   ⟸   XM_038612413
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038468340   ⟸   XM_038612412
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038468342   ⟸   XM_038612414
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038533616   ⟸   XM_038677688
- Peptide Label: isoform X2
- UniProtKB: A0A8C0PV90 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038533615   ⟸   XM_038677687
- Peptide Label: isoform X1
- UniProtKB: A0A8C0NFS3 (UniProtKB/TrEMBL),   A0A8I3NQQ0 (UniProtKB/TrEMBL),   A0A8C0PV90 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038533617   ⟸   XM_038677689
- Peptide Label: isoform X3
- UniProtKB: A0A8C0K7T3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038468694   ⟸   XM_038612766
- Peptide Label: isoform X2
- UniProtKB: A0A8C0PV90 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038404400   ⟸   XM_038548472
- Peptide Label: isoform X2
- UniProtKB: A0A8C0PV90 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038404399   ⟸   XM_038548471
- Peptide Label: isoform X1
- UniProtKB: A0A8C0NFS3 (UniProtKB/TrEMBL),   A0A8C0PV90 (UniProtKB/TrEMBL),   A0A8I3NQQ0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038404401   ⟸   XM_038548473
- Peptide Label: isoform X3
- UniProtKB: A0A8C0K7T3 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845020365   ⟸   ENSCAFT00845025845
Protein Domains
EGF-like


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000031865 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030015586 UniProtKB/TrEMBL
  ENSCAFG00040002614 UniProtKB/TrEMBL
  ENSCAFG00845014443 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000044715.3 UniProtKB/TrEMBL
  ENSCAFT00030028746.1 UniProtKB/TrEMBL
  ENSCAFT00040004978.1 UniProtKB/TrEMBL
  ENSCAFT00845025845 ENTREZGENE
  ENSCAFT00845025845.1 UniProtKB/TrEMBL
Gene3D-CATH Laminin UniProtKB/TrEMBL
  Tie2 ligand-binding domain superfamily UniProtKB/TrEMBL
InterPro EGF-like_dom UniProtKB/TrEMBL
  LE_dom UniProtKB/TrEMBL
  SREC1/2 UniProtKB/TrEMBL
NCBI Gene SCARF1 ENTREZGENE
PANTHER PTHR24043 UniProtKB/TrEMBL
  PTHR24043:SF0 UniProtKB/TrEMBL
Pfam Laminin_EGF UniProtKB/TrEMBL
PRINTS EGFLAMININ UniProtKB/TrEMBL
PROSITE EGF_1 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
SMART EGF UniProtKB/TrEMBL
  EGF_Lam UniProtKB/TrEMBL
UniProt A0A8C0K7T3 ENTREZGENE
  A0A8C0NFS3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0PV90 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3NQQ0 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:111713 ENTREZGENE