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CD163L1 CD163 molecule like 1 [ Homo sapiens (human) ]

Gene ID: 283316, updated on 11-Apr-2024

Summary

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Official Symbol
CD163L1provided by HGNC
Official Full Name
CD163 molecule like 1provided by HGNC
Primary source
HGNC:HGNC:30375
See related
Ensembl:ENSG00000177675 MIM:606079; AllianceGenome:HGNC:30375
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
WC1; M160; STAR; CD163B; SCARI2
Summary
This gene encodes a member of the scavenger receptor cysteine-rich (SRCR) superfamily. Members of this family are secreted or membrane-anchored proteins mainly found in cells associated with the immune system. The SRCR family is defined by a 100-110 amino acid SRCR domain, which may mediate protein-protein interaction and ligand binding. The encoded protein contains twelve SRCR domains, a transmembrane region and a cytoplasmic domain. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2014]
Expression
Broad expression in spleen (RPKM 7.7), small intestine (RPKM 4.5) and 14 other tissues See more
Orthologs
all
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Genomic context

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Location:
12p13.31
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (7318768..7444153, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (7332108..7457540, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (7507556..7596749, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:7341269-7341768 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:7340767-7341268 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5916 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:7342139-7342855 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:7342856-7343571 Neighboring gene peroxisomal biogenesis factor 5 Neighboring gene acyl-CoA synthetase medium chain family member 6 pseudogene Neighboring gene MPRA-validated peak1554 silencer Neighboring gene NANOG hESC enhancer GRCh37_chr12:7434099-7434654 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr12:7469109-7470308 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr12:7476238-7477437 Neighboring gene uncharacterized LOC101927882 Neighboring gene acyl-CoA synthetase medium chain family member 4 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr12:7521391-7522590 Neighboring gene M-phase phosphoprotein 8 pseudogene Neighboring gene uncharacterized LOC124902870 Neighboring gene NANOG hESC enhancer GRCh37_chr12:7650144-7650645 Neighboring gene CD163 molecule Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_30893 Neighboring gene MPRA-validated peak1556 silencer Neighboring gene glyceraldehyde 3 phosphate dehydrogenase pseudogene 31

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Antagonistic regulation of macrophage phenotype by M-CSF and GM-CSF: implication in atherosclerosis. Brochériou I, et al. Atherosclerosis, 2011 Feb. PMID 21159337
  2. Identification of the CD163 protein domains involved in infection of the porcine reproductive and respiratory syndrome virus. Van Gorp H, et al. J Virol, 2010 Mar. PMID 20032174, Free PMC Article
  3. Cloning of a novel scavenger receptor cysteine-rich type I transmembrane molecule (M160) expressed by human macrophages. Gronlund J, et al. J Immunol, 2000 Dec 1. PMID 11086079
  4. CD163L1(+)CXCL10(+) Macrophages are Enriched Within Colonic Lamina Propria of Diverticulitis Patients. Schieffer KM, et al. J Surg Res, 2021 Nov. PMID 34256195
  5. Assignment of CD163B, the gene encoding M160, a novel scavenger receptor, to human chromosome 12p13.3 by in situ hybridization and somatic cell hybrid analysis. Stover CM, et al. Cytogenet Cell Genet, 2000. PMID 11124526

See all (14) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. CD163L1(+)CXCL10(+) Macrophages are Enriched Within Colonic Lamina Propria of Diverticulitis Patients.
    Title: CD163L1(+)CXCL10(+) Macrophages are Enriched Within Colonic Lamina Propria of Diverticulitis Patients.
  2. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
  3. Observational study of gene-disease association. (HuGE Navigator)
    Title: New genetic associations detected in a host response study to hepatitis B vaccine.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Envelope transmembrane glycoprotein gp41 env A synthetic peptide corresponding to the immunosuppressive domain (amino acids 574-592) of HIV-1 gp41 downregulates the expression of CD163 molecule-like 1 (CD163L1) in peptide-treated PBMCs PubMed

Go to the HIV-1, Human Interaction Database

General gene information

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Homology

Gene Ontology Provided by GOA

Component Evidence Code Pubs
is_active_in external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
scavenger receptor cysteine-rich type 1 protein M160
Names
CD163 antigen B
CD163 antigen-like 1

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_001297650.2 → NP_001284579.2  scavenger receptor cysteine-rich type 1 protein M160 isoform 1 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC131205, AC131206, AC131207
    Consensus CDS
    CCDS73434.1
    Related
    ENSP00000393474.2, ENST00000416109.2
    Conserved Domains (2) summary
    smart00202
    Location:1046 → 1146
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:1161 → 1253
    SRCR; Scavenger receptor cysteine-rich domain

  2. NM_174941.6 → NP_777601.3  scavenger receptor cysteine-rich type 1 protein M160 isoform 2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AC131205, AC131206, AC131207
    Consensus CDS
    CCDS8577.1
    UniProtKB/Swiss-Prot
    B4E0G7, C9JHR7, E7EVK4, Q2M3B7, Q6UWC2, Q9NR16
    Related
    ENSP00000315945.3, ENST00000313599.8
    Conserved Domains (2) summary
    smart00202
    Location:1036 → 1136
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:1151 → 1243
    SRCR; Scavenger receptor cysteine-rich domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    7318768..7444153 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011520616.2 → XP_011518918.1  scavenger receptor cysteine-rich type 1 protein M160 isoform X1

    UniProtKB/Swiss-Prot
    Q9NR16
    Conserved Domains (2) summary
    smart00202
    Location:1036 → 1136
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:1041 → 1136
    SRCR; Scavenger receptor cysteine-rich domain

  2. XM_011520617.3 → XP_011518919.1  scavenger receptor cysteine-rich type 1 protein M160 isoform X2

    Conserved Domains (2) summary
    smart00202
    Location:1011 → 1111
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:1016 → 1111
    SRCR; Scavenger receptor cysteine-rich domain

  3. XM_011520620.2 → XP_011518922.1  scavenger receptor cysteine-rich type 1 protein M160 isoform X4

    See identical proteins and their annotated locations for XP_011518922.1

    Conserved Domains (2) summary
    smart00202
    Location:765 → 865
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:770 → 865
    SRCR; Scavenger receptor cysteine-rich domain

  4. XM_011520619.2 → XP_011518921.1  scavenger receptor cysteine-rich type 1 protein M160 isoform X4

    See identical proteins and their annotated locations for XP_011518921.1

    Conserved Domains (2) summary
    smart00202
    Location:765 → 865
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:770 → 865
    SRCR; Scavenger receptor cysteine-rich domain

  5. XM_011520618.4 → XP_011518920.1  scavenger receptor cysteine-rich type 1 protein M160 isoform X3

    Conserved Domains (2) summary
    smart00202
    Location:797 → 897
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:802 → 897
    SRCR; Scavenger receptor cysteine-rich domain

  6. XM_011520621.4 → XP_011518923.1  scavenger receptor cysteine-rich type 1 protein M160 isoform X5

    Conserved Domains (2) summary
    smart00202
    Location:349 → 449
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:354 → 449
    SRCR; Scavenger receptor cysteine-rich domain

RNA

  1. XR_931282.3 RNA Sequence

  2. XR_007063068.1 RNA Sequence

  3. XR_007063067.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    7332108..7457540 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054371768.1 → XP_054227743.1  scavenger receptor cysteine-rich type 1 protein M160 isoform X1

  2. XM_054371769.1 → XP_054227744.1  scavenger receptor cysteine-rich type 1 protein M160 isoform X2

  3. XM_054371772.1 → XP_054227747.1  scavenger receptor cysteine-rich type 1 protein M160 isoform X4

  4. XM_054371771.1 → XP_054227746.1  scavenger receptor cysteine-rich type 1 protein M160 isoform X4

  5. XM_054371770.1 → XP_054227745.1  scavenger receptor cysteine-rich type 1 protein M160 isoform X3

  6. XM_054371773.1 → XP_054227748.1  scavenger receptor cysteine-rich type 1 protein M160 isoform X5

RNA

  1. XR_008488566.1 RNA Sequence

  2. XR_008488565.1 RNA Sequence

  3. XR_008488564.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9NR16.2 GenPept UniProtKB/Swiss-Prot:Q9NR16

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