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CD109 CD109 molecule [ Homo sapiens (human) ]

Gene ID: 135228, updated on 5-Mar-2024

Summary

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Official Symbol
CD109provided by HGNC
Official Full Name
CD109 moleculeprovided by HGNC
Primary source
HGNC:HGNC:21685
See related
Ensembl:ENSG00000156535 MIM:608859; AllianceGenome:HGNC:21685
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
p180; r150; CPAMD7
Summary
This gene encodes a glycosyl phosphatidylinositol (GPI)-linked glycoprotein that localizes to the surface of platelets, activated T-cells, and endothelial cells. The protein binds to and negatively regulates signalling by transforming growth factor beta (TGF-beta). Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Apr 2014]
Expression
Broad expression in skin (RPKM 9.8), endometrium (RPKM 7.6) and 21 other tissues See more
Orthologs
mouse all
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Genomic context

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See CD109 in Genome Data Viewer
Location:
6q13
Exon count:
38
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (73679192..73828313)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (74857189..75006336)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (74405926..74538037)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17337 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17336 Neighboring gene EEF1A1 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24751 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24752 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:74273247-74273796 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:74275447-74275996 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:74285738-74286453 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr6:74289636-74290835 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:74291165-74292007 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_94401 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_94402 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_94403 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_94405 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:74329139-74329367 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:74333473-74333650 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_94408 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_94412 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_94411 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_94413 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_94414 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_94416 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_94418 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17338 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24754 Neighboring gene solute carrier family 17 member 5 Neighboring gene Sharpr-MPRA regulatory region 11313 Neighboring gene ribosomal protein S27 pseudogene 15 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24755 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:74405769-74406483 Neighboring gene MPRA-validated peak5902 silencer Neighboring gene CD109 antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 9272 Neighboring gene MPRA-validated peak5903 silencer Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:74550244-74550817 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:74560911-74561502 Neighboring gene uncharacterized LOC101928516 Neighboring gene thioredoxin pseudogene 7 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_94479 Neighboring gene family with sequence similarity 136 member A pseudogene

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. CD109 Promotes Drug Resistance in A2780 Ovarian Cancer Cells by Regulating the STAT3-NOTCH1 Signaling Axis. Kim JS, et al. Int J Mol Sci, 2023 Jun 18. PMID 37373457, Free PMC Article
  2. Significance of expression of CD109 in osteosarcoma and its involvement in tumor progression via BMP signaling. Mori N, et al. Pathol Res Pract, 2023 May. PMID 37030166
  3. CD109-regulated mechanical properties of endothelial cells. Starodubtseva MN, et al. Cytoskeleton (Hoboken), 2023 May-Jun. PMID 36929132
  4. The Significance of CD109 Expression in Oropharyngeal Squamous Cell Carcinoma. Tsutsumi S, et al. Anticancer Res, 2022 Apr. PMID 35347029
  5. CD109 expression in tumor cells and stroma correlates with progression and prognosis in pancreatic cancer. Adachi K, et al. Virchows Arch, 2022 Apr. PMID 34762199

See all (97) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. H3K27 acetylation activated-CD109 evokes 5-fluorouracil resistance in gastric cancer via the JNK/MAPK signaling pathway.
    Title: H3K27 acetylation activated-CD109 evokes 5-fluorouracil resistance in gastric cancer via the JNK/MAPK signaling pathway.
  2. CD109 Promotes Drug Resistance in A2780 Ovarian Cancer Cells by Regulating the STAT3-NOTCH1 Signaling Axis.
    Title: CD109 Promotes Drug Resistance in A2780 Ovarian Cancer Cells by Regulating the STAT3-NOTCH1 Signaling Axis.
  3. CD109-regulated mechanical properties of endothelial cells.
    Title: CD109-regulated mechanical properties of endothelial cells.
  4. Significance of expression of CD109 in osteosarcoma and its involvement in tumor progression via BMP signaling.
    Title: Significance of expression of CD109 in osteosarcoma and its involvement in tumor progression via BMP signaling.
  5. Placental and plasma early predictive biomarkers for gestational diabetes mellitus.
    Title: Placental and plasma early predictive biomarkers for gestational diabetes mellitus.
  6. CD109 expression in tumor cells and stroma correlates with progression and prognosis in pancreatic cancer.
    Title: CD109 expression in tumor cells and stroma correlates with progression and prognosis in pancreatic cancer.
  7. The Significance of CD109 Expression in Oropharyngeal Squamous Cell Carcinoma.
    Title: The Significance of CD109 Expression in Oropharyngeal Squamous Cell Carcinoma.
  8. The GPI-anchored protein CD109 protects hematopoietic progenitor cells from undergoing erythroid differentiation induced by TGF-beta.
    Title: The GPI-anchored protein CD109 protects hematopoietic progenitor cells from undergoing erythroid differentiation induced by TGF-β.
  9. Single-cell analysis pinpoints distinct populations of cytotoxic CD4(+) T cells and an IL-10(+)CD109(+) TH2 cell population in nasal polyps.
    Title: Single-cell analysis pinpoints distinct populations of cytotoxic CD4(+) T cells and an IL-10(+)CD109(+) T(H)2 cell population in nasal polyps.
  10. CD109-GP130 interaction drives glioblastoma stem cell plasticity and chemoresistance through STAT3 activity.
    Title: CD109-GP130 interaction drives glioblastoma stem cell plasticity and chemoresistance through STAT3 activity.
Submit: New GeneRIF Correction See all GeneRIFs (58)

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

EBI GWAS Catalog

Description
Meta-analysis of genome-wide association studies identifies six new Loci for serum calcium concentrations.
EBI GWAS Catalog
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
EBI GWAS Catalog

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
Nef nef Both HIV-1 Nef and Vpu downregulate the cell surface expression of CD109 PubMed
Vpu vpu Both HIV-1 Nef and Vpu downregulate the cell surface expression of CD109 PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ38569, FLJ41966, DKFZp762L1111

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables serine-type endopeptidase inhibitor activity IEA
Inferred from Electronic Annotation
more info
  
enables transforming growth factor beta binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in hair follicle development IEA
Inferred from Electronic Annotation
more info
  
involved_in keratinocyte proliferation IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of keratinocyte proliferation IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of protein phosphorylation IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of stem cell proliferation IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of transforming growth factor beta receptor signaling pathway IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of wound healing IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in osteoclast fusion IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of keratinocyte differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in stem cell proliferation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cell surface HDA PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
  
located_in extracellular region TAS
Traceable Author Statement
more info
  
located_in extracellular space IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane IDA
Inferred from Direct Assay
more info
  
located_in plasma membrane TAS
Traceable Author Statement
more info
  
located_in platelet alpha granule membrane TAS
Traceable Author Statement
more info
  
located_in side of membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
CD109 antigen
Names
150 kDa TGF-beta-1-binding protein
C3 and PZP-like alpha-2-macroglobulin domain-containing protein 7
Gov platelet alloantigens
activated T-cell marker CD109
platelet-specific Gov antigen

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.

Genomic

  1. NG_033971.1 RefSeqGene

    Range
    5419..137529
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_1002

mRNA and Protein(s)

  1. NM_001159587.3 → NP_001153059.1  CD109 antigen isoform 2 preproprotein

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site, compared to variant 1. The resulting isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AF410459, AK095888, AK130104, AL834478, AY788891, BM722643, BX107999, BX646244, CB529476, CB853216
    Consensus CDS
    CCDS55038.1
    UniProtKB/Swiss-Prot
    Q6YHK3
    Related
    ENSP00000388062.2, ENST00000437994.6
    Conserved Domains (6) summary
    COG2373
    Location:66 → 1000
    YfaS; Uncharacterized conserved protein YfaS, alpha-2-macroglobulin family [General function prediction only]
    cd02897
    Location:907 → 1194
    A2M_2; Proteins similar to alpha2-macroglobulin (alpha (2)-M). This group also contains the pregnancy zone protein (PZP). Alpha(2)-M and PZP are broadly specific proteinase inhibitors. Alpha (2)-M is a major carrier protein in serum. The structural thioester ...
    pfam00207
    Location:693 → 784
    A2M; Alpha-2-macroglobulin family
    pfam07677
    Location:1292 → 1379
    A2M_recep; A-macroglobulin receptor
    pfam07703
    Location:468 → 599
    A2M_N_2; Alpha-2-macroglobulin family N-terminal region
    pfam17791
    Location:223 → 301
    MG3; Macroglobulin domain MG3

  2. NM_001159588.3 → NP_001153060.1  CD109 antigen isoform 3 preproprotein

    See identical proteins and their annotated locations for NP_001153060.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. The resulting isoform (3) is shorter than isoform 1.
    Source sequence(s)
    AK130104, AL834478, BM722643, BX107999, BX641095, BX646244, CB529476, CB853216
    Consensus CDS
    CCDS55039.1
    UniProtKB/Swiss-Prot
    Q6YHK3
    Related
    ENSP00000404475.2, ENST00000422508.6
    Conserved Domains (6) summary
    cd02897
    Location:830 → 1117
    A2M_2; Proteins similar to alpha2-macroglobulin (alpha (2)-M). This group also contains the pregnancy zone protein (PZP). Alpha(2)-M and PZP are broadly specific proteinase inhibitors. Alpha (2)-M is a major carrier protein in serum. The structural thioester ...
    pfam00207
    Location:616 → 705
    A2M; Alpha-2-macroglobulin family
    pfam07677
    Location:1234 → 1318
    A2M_recep; A-macroglobulin receptor
    pfam07678
    Location:882 → 1119
    A2M_comp; A-macroglobulin complement component
    pfam07703
    Location:393 → 519
    A2M_N_2; Alpha-2-macroglobulin family N-terminal region
    cl19929
    Location:87 → 144
    A2M_N; MG2 domain

  3. NM_133493.5 → NP_598000.2  CD109 antigen isoform 1 preproprotein

    See identical proteins and their annotated locations for NP_598000.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AF410459, AK095888, AK130104, AL834478, BM722643, BX107999, BX646244, CB529476, CB853216
    Consensus CDS
    CCDS4982.1
    UniProtKB/Swiss-Prot
    A5YKK4, B2R948, B3KW25, Q0P6K7, Q5SYA8, Q5XUM7, Q5XUM9, Q6MZI7, Q6YHK3, Q8N3A7, Q8N915, Q8TDJ2, Q8TDJ3
    Related
    ENSP00000287097.4, ENST00000287097.6
    Conserved Domains (7) summary
    COG2373
    Location:66 → 1000
    YfaS; Uncharacterized conserved protein YfaS, alpha-2-macroglobulin family [General function prediction only]
    cd02897
    Location:907 → 1194
    A2M_2; Proteins similar to alpha2-macroglobulin (alpha (2)-M). This group also contains the pregnancy zone protein (PZP). Alpha(2)-M and PZP are broadly specific proteinase inhibitors. Alpha (2)-M is a major carrier protein in serum. The structural thioester ...
    pfam00207
    Location:693 → 782
    A2M; Alpha-2-macroglobulin family
    pfam01835
    Location:130 → 221
    A2M_N; MG2 domain
    pfam07677
    Location:1311 → 1395
    A2M_recep; A-macroglobulin receptor
    pfam07678
    Location:959 → 1196
    A2M_comp; A-macroglobulin complement component
    pfam07703
    Location:470 → 596
    A2M_N_2; Alpha-2-macroglobulin family N-terminal region

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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    73679192..73828313
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047418211.1 → XP_047274167.1  CD109 antigen isoform X1

  2. XM_047418212.1 → XP_047274168.1  CD109 antigen isoform X2

  3. XM_047418215.1 → XP_047274171.1  CD109 antigen isoform X2

  4. XM_047418213.1 → XP_047274169.1  CD109 antigen isoform X2

  5. XM_047418216.1 → XP_047274172.1  CD109 antigen isoform X2

  6. XM_047418214.1 → XP_047274170.1  CD109 antigen isoform X2

  7. XM_047418217.1 → XP_047274173.1  CD109 antigen isoform X3

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    74857189..75006336
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054354302.1 → XP_054210277.1  CD109 antigen isoform X1

  2. XM_054354304.1 → XP_054210279.1  CD109 antigen isoform X2

  3. XM_054354303.1 → XP_054210278.1  CD109 antigen isoform X2

  4. XM_054354305.1 → XP_054210280.1  CD109 antigen isoform X2

  5. XM_054354306.1 → XP_054210281.1  CD109 antigen isoform X2

  6. XM_054354307.1 → XP_054210282.1  CD109 antigen isoform X3

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6YHK3.2 GenPept UniProtKB/Swiss-Prot:Q6YHK3

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