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Msr1 macrophage scavenger receptor 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 498638, updated on 30-Sep-2021

Summary

Official Symbol
Msr1provided by RGD
Official Full Name
macrophage scavenger receptor 1provided by RGD
Primary source
RGD:1564316
See related
EnsemblRapid:ENSRNOG00000012779
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1564316
Expression
Biased expression in Spleen (RPKM 155.1), Liver (RPKM 138.4) and 8 other tissues See more
Orthologs
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Genomic context

See Msr1 in Genome Data Viewer
Location:
16q12.1
Exon count:
13
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (52717775..52802890)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (56817714..56900025, complement)

Chromosome 16 - NC_051351.1Genomic Context describing neighboring genes Neighboring gene U6 spliceosomal RNA Neighboring gene similar to 40S ribosomal protein S3 Neighboring gene guanine nucleotide-binding protein, beta-1 subunit-like Neighboring gene U4 spliceosomal RNA Neighboring gene similar to zinc finger protein 148 (pHZ-52)

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables amyloid-beta binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables amyloid-beta binding ISO
Inferred from Sequence Orthology
more info
 
enables cargo receptor activity ISO
Inferred from Sequence Orthology
more info
 
enables low-density lipoprotein particle binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables low-density lipoprotein particle binding ISO
Inferred from Sequence Orthology
more info
 
enables molecular_function ND
No biological Data available
more info
 
enables scavenger receptor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in amyloid-beta clearance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in amyloid-beta clearance ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to organic cyclic compound IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in cholesterol transport ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within lipoprotein transport ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
involved_in phagocytosis, engulfment ISO
Inferred from Sequence Orthology
more info
 
involved_in plasma lipoprotein particle clearance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in plasma lipoprotein particle clearance ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of cholesterol storage IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of cholesterol storage ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of macrophage derived foam cell differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in receptor-mediated endocytosis ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cytoplasmic vesicle IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
macrophage scavenger receptor types I and II

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001191939.1NP_001178868.1  macrophage scavenger receptor types I and II

    Status: PROVISIONAL

    Source sequence(s)
    JACYVU010000283
    Conserved Domains (4) summary
    pfam01391
    Location:288345
    Collagen; Collagen triple helix repeat (20 copies)
    smart00202
    Location:353453
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:358453
    SRCR; Scavenger receptor cysteine-rich domain
    pfam03523
    Location:121169
    Macscav_rec; Macrophage scavenger receptor

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051351.1 Reference mRatBN7.2 Primary Assembly

    Range
    52717775..52802890
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039094773.1XP_038950701.1  macrophage scavenger receptor types I and II isoform X1

    Conserved Domains (4) summary
    smart00202
    Location:408491
    SR; Scavenger receptor Cys-rich
    pfam01391
    Location:343397
    Collagen; Collagen triple helix repeat (20 copies)
    pfam03523
    Location:176224
    Macscav_rec; Macrophage scavenger receptor
    pfam07426
    Location:170277
    Dynactin_p22; Dynactin subunit p22
  2. XM_006253206.4XP_006253268.1  macrophage scavenger receptor types I and II isoform X2

    UniProtKB/TrEMBL
    D3ZDS2
    Related
    ENSRNOP00000017339.7, ENSRNOT00000017339.8
    Conserved Domains (4) summary
    pfam01391
    Location:343400
    Collagen; Collagen triple helix repeat (20 copies)
    smart00202
    Location:408508
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:413508
    SRCR; Scavenger receptor cysteine-rich domain
    pfam03523
    Location:176224
    Macscav_rec; Macrophage scavenger receptor
  3. XM_006253207.3XP_006253269.2  macrophage scavenger receptor types I and II isoform X4

    Conserved Domains (3) summary
    pfam01391
    Location:321375
    Collagen; Collagen triple helix repeat (20 copies)
    pfam03523
    Location:154202
    Macscav_rec; Macrophage scavenger receptor
    pfam07426
    Location:148255
    Dynactin_p22; Dynactin subunit p22
  4. XM_039094774.1XP_038950702.1  macrophage scavenger receptor types I and II isoform X3

    Conserved Domains (4) summary
    smart00202
    Location:273356
    SR; Scavenger receptor Cys-rich
    pfam01391
    Location:208262
    Collagen; Collagen triple helix repeat (20 copies)
    pfam03523
    Location:4189
    Macscav_rec; Macrophage scavenger receptor
    pfam07426
    Location:35142
    Dynactin_p22; Dynactin subunit p22
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