PSG9

gene
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Also known as PSGII

Summary

PSG9 (pregnancy specific beta-1-glycoprotein 9, HGNC:9526) is a protein-coding gene on chromosome 19q13.31, encoding Pregnancy-specific beta-1-glycoprotein 9 (Q00887). Binds to the small latent transforming growth factor-beta complex, consisting of the N-terminal TGFB1 latency-associated peptide (LAP) and the mature form of TGFB1, thereby leading to the activation of TGFB1.

The protein encoded by this gene is a member of the pregnancy-specific glycoprotein (PSG) family. This protein family and the closely related carcinoembryonic antigen cell adhesion molecule (CEACAM) gene family are both members of the immunoglobulin superfamily, and are organized as a large gene cluster. This protein is thought to inhibit platelet-fibrinogen interactions. Several studies suggest that reduced serum concentrations of PSGs are associated with fetal growth restrictions, while up-regulation of this gene has been observed in colorectal cancers. Several pseudogenes of this gene are found on chromosome 19. Alternative splicing results in multiple transcript variants that encode multiple protein isoforms.

Source: NCBI Gene 5678 — RefSeq curated summary.

At a glance

  • GWAS associations: 1
  • Clinical variants (ClinVar): 243 total
  • MANE Select transcript: NM_002784

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:9526
Approved symbolPSG9
Namepregnancy specific beta-1-glycoprotein 9
Location19q13.31
Locus typegene with protein product
StatusApproved
AliasesPSGII
Ensembl geneENSG00000183668
Ensembl biotypeprotein_coding
OMIM176398
Entrez5678

Gene structure

Transcript identifiers

Ensembl transcripts: 9 — 8 protein_coding, 1 retained_intron

ENST00000244293, ENST00000270077, ENST00000291752, ENST00000418820, ENST00000443718, ENST00000593948, ENST00000595404, ENST00000596730, ENST00000621109

RefSeq mRNA: 5 — MANE Select: NM_002784 NM_001301707, NM_001301708, NM_001301709, NM_001411075, NM_002784

CCDS: CCDS12618, CCDS77311, CCDS77312, CCDS77314, CCDS92636

Canonical transcript exons

ENST00000270077 — 6 exons

ExonStartEnd
ENSE000018506624325328243253646
ENSE000022928754326778443268149
ENSE000023166404326936843269530
ENSE000024366714325885743259135
ENSE000025033784326186043262138
ENSE000036577614325820243258456

Expression profiles

Bgee: expression breadth broad, 63 present calls, max score 94.61.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 2.2896 / max 2083.8337, expressed in 67 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter IDTPM avgSamples expressed
1812502.275566
1812490.00983
2088490.00441

Top tissues by expression

243 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
placentaUBERON:000198794.61gold quality
deciduaUBERON:000245085.94gold quality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047373.82gold quality
ileal mucosaUBERON:000033172.85gold quality
diaphragmUBERON:000110371.46gold quality
pancreatic ductal cellCL:000207967.78silver quality
olfactory bulbUBERON:000226467.37gold quality
type B pancreatic cellCL:000016967.07gold quality
hair follicleUBERON:000207362.91gold quality
left ventricle myocardiumUBERON:000656662.56gold quality
deltoidUBERON:000147661.71silver quality
stromal cell of endometriumCL:000225561.37gold quality
heart right ventricleUBERON:000208060.24gold quality
nasal cavity epitheliumUBERON:000538459.87gold quality
CA1 field of hippocampusUBERON:000388159.78gold quality
rectumUBERON:000105258.44gold quality
gluteal muscleUBERON:000200058.15gold quality
triceps brachiiUBERON:000150957.95gold quality
islet of LangerhansUBERON:000000657.72gold quality
quadriceps femorisUBERON:000137757.57gold quality
skeletal muscle tissue of biceps brachiiUBERON:000450257.36gold quality
smooth muscle tissueUBERON:000113556.95gold quality
vastus lateralisUBERON:000137956.58gold quality
adrenal tissueUBERON:001830356.56gold quality
cranial nerve IIUBERON:000094155.74silver quality
colonic mucosaUBERON:000031755.23silver quality
thymusUBERON:000237055.16gold quality
epithelial cell of pancreasCL:000008355.15gold quality
mucosa of transverse colonUBERON:000499154.42gold quality
upper leg skinUBERON:000426254.23gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-ANND-3yes4.26
E-MTAB-6142no49.94

Regulation

Is transcription factor: yes

Downstream targets (CollecTRI)

1 targets.

TargetRegulation
FOXP3Activation

miRNA regulators (miRDB)

21 targeting PSG9, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-4262100.0073.263931
HSA-MIR-181A-5P99.9972.962995
HSA-MIR-181B-5P99.9972.972996
HSA-MIR-181C-5P99.9972.952996
HSA-MIR-181D-5P99.9973.042997
HSA-MIR-19A-3P99.9875.332762
HSA-MIR-19B-3P99.9875.442754
HSA-MIR-570-3P99.9672.414910
HSA-MIR-10527-5P99.9172.283754
HSA-MIR-684499.8270.692423
HSA-MIR-4659A-3P99.8072.624248
HSA-MIR-4659B-3P99.8072.624248
HSA-MIR-556-3P99.7468.751203
HSA-MIR-7154-5P99.6970.521900
HSA-MIR-516B-5P99.5666.331495
HSA-MIR-6733-3P99.5467.801281
HSA-MIR-54399.5269.032595
HSA-MIR-323B-3P99.1468.89725
HSA-MIR-501-5P98.7768.881328
HSA-MIR-806098.6166.931187
HSA-MIR-990398.4766.70748

Literature-anchored findings (GeneRIF, showing 6)

  • PSG9 may have a role in development of colorectal carcinogenesis in patients with adenomatous polyposis coli (PMID:15982419)
  • PSG9, through its activation of TGFbeta-1, could be a potent inducer of immune tolerance (PMID:27389696)
  • Findings illustrate the innovative mechanism by which PSG9 drives the progression of colorectal cancer and tumor angiogenesis. This occurs via nuclear translocation of PSG9/SMAD4, which activates angiogenic cytokines. (PMID:27528036)
  • Results indicate that pregnancy-specific glycoprotein 9 (PSG9) may facilitate the development of hepatocellular carcinoma (HCC) by fostering angiogenesis via promoting VEGFA production in cancer HCC. (PMID:28078509)
  • Plasma OPN + MMP7 + PSG9 elevation in combination was a prognostic factor for overall survival in hepatocellular carcinoma (PMID:29770948)
  • PSG7 and 9 (Pregnancy-Specific beta-1 Glycoproteins 7 and 9): Novel Biomarkers for Preeclampsia. (PMID:35322669)

Cross-species orthologs

0 orthologs

Paralogs (24): CEACAM21 (ENSG00000007129), CEACAM7 (ENSG00000007306), CEACAM1 (ENSG00000079385), CEACAM6 (ENSG00000086548), CEACAM4 (ENSG00000105352), CEACAM5 (ENSG00000105388), PSG8 (ENSG00000124467), CEACAM8 (ENSG00000124469), HEPACAM (ENSG00000165478), PSG6 (ENSG00000170848), CEACAM3 (ENSG00000170956), CEACAM19 (ENSG00000186567), HEPACAM2 (ENSG00000188175), PSG5 (ENSG00000204941), CEACAM18 (ENSG00000213822), CEACAM16 (ENSG00000213892), VSTM5 (ENSG00000214376), PSG3 (ENSG00000221826), PSG7 (ENSG00000221878), PSG1 (ENSG00000231924), PSG2 (ENSG00000242221), PSG11 (ENSG00000243130), PSG4 (ENSG00000243137), CEACAM20 (ENSG00000273777)

Protein

Protein identifiers

Pregnancy-specific beta-1-glycoprotein 9Q00887 (reviewed: Q00887)

Alternative names: PS34, Pregnancy-specific beta-1 glycoprotein B, Pregnancy-specific beta-1-glycoprotein 11, Pregnancy-specific glycoprotein 7

All UniProt accessions (7): A0A087WYK1, E7EW65, G3XAA7, H7C1I4, M0R0E4, M0R0U8, Q00887

UniProt curated annotations — full annotation on UniProt →

Function. Binds to the small latent transforming growth factor-beta complex, consisting of the N-terminal TGFB1 latency-associated peptide (LAP) and the mature form of TGFB1, thereby leading to the activation of TGFB1. The activation of TGFB1 leads to stimulation of naive CD4(+) T-cells to increase FoxP3 expression and to an increase in the number of FoxP3(+) regulatory T-cells. Induces the differentiation of a suppressive CD4(+)LAP(+)FoxP3(-) T-cell subset. Induces the secretion of TGFB1 in macrophages, but not in activated CD4(+) T-cells. May reduce the expression of several pro-inflammatory cytokines and chemokines by CD4(+) T-cells, including IL2 and IL6.

Subunit / interactions. Interacts with latency-associated peptide; leading to TGFB1 activation.

Subcellular location. Secreted.

Similarity. Belongs to the immunoglobulin superfamily. CEA family.

Isoforms (2)

UniProt IDNamesCanonical?
Q00887-11yes
Q00887-22

RefSeq proteins (5): NP_001288636, NP_001288637, NP_001288638, NP_001398004, NP_002775* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR003598Ig_sub2Domain
IPR003599Ig_subDomain
IPR007110Ig-like_domDomain
IPR013106Ig_V-setDomain
IPR013783Ig-like_foldHomologous_superfamily
IPR036179Ig-like_dom_sfHomologous_superfamily
IPR050831CEA_cell_adhesionFamily

Pfam: PF07686, PF13895

UniProt features (29 total): glycosylation site 6, sequence conflict 6, sequence variant 5, domain 4, disulfide bond 3, splice variant 2, signal peptide 1, chain 1, short sequence motif 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q00887-F187.440.72

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Disulfide bonds (3): 169–217, 262–310, 354–394

Glycosylation sites (6): 268, 303, 387, 104, 111, 199

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

IDPathway
R-HSA-202733Cell surface interactions at the vascular wall

MSigDB gene sets: 137 (showing top): GOBP_SMAD_PROTEIN_SIGNAL_TRANSDUCTION, GOBP_REGULATION_OF_CELL_ACTIVATION, LI_CISPLATIN_RESISTANCE_DN, KOBAYASHI_EGFR_SIGNALING_24HR_UP, GOBP_HETEROPHILIC_CELL_CELL_ADHESION, GOBP_TOLERANCE_INDUCTION, GOBP_INFLAMMATORY_RESPONSE, GOZGIT_ESR1_TARGETS_DN, GOBP_CELL_CELL_ADHESION, BROWNE_HCMV_INFECTION_48HR_DN, GOBP_REGULATION_OF_LEUKOCYTE_DIFFERENTIATION, MISSIAGLIA_REGULATED_BY_METHYLATION_UP, GOBP_REGULATION_OF_IMMUNE_RESPONSE, GOBP_REGULATION_OF_HEMOPOIESIS, GOBP_NEGATIVE_REGULATION_OF_MULTICELLULAR_ORGANISMAL_PROCESS

GO Biological Process (7): tolerance induction dependent upon immune response (GO:0002461), Fc receptor mediated inhibitory signaling pathway (GO:0002774), transforming growth factor beta receptor signaling pathway (GO:0007179), female pregnancy (GO:0007565), regulation of regulatory T cell differentiation (GO:0045589), positive regulation of SMAD protein signal transduction (GO:0060391), negative regulation of cytokine production involved in inflammatory response (GO:1900016)

GO Molecular Function (1): protein-containing complex binding (GO:0044877)

GO Cellular Component (2): extracellular region (GO:0005576), transforming growth factor beta ligand-receptor complex (GO:0070021)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Hemostasis1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains1
tolerance induction1
immune response-inhibiting cell surface receptor signaling pathway1
cellular response to transforming growth factor beta stimulus1
transforming growth factor beta receptor superfamily signaling pathway1
multi-organism reproductive process1
multi-multicellular organism process1
regulatory T cell differentiation1
regulation of T cell differentiation1
regulation of SMAD protein signal transduction1
SMAD protein signal transduction1
positive regulation of transmembrane receptor protein serine/threonine kinase signaling pathway1
positive regulation of intracellular signal transduction1
negative regulation of cytokine production1
cytokine production involved in inflammatory response1
regulation of cytokine production involved in inflammatory response1
binding1
cellular anatomical structure1
plasma membrane signaling receptor complex1
serine/threonine protein kinase complex1

Protein interactions and networks

STRING

1052 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
PSG9CSH1P01243767
PSG9CSH1P01243763
PSG9PAPPAQ13219621
PSG9ALPPP05187469
PSG9AFPP02771447
PSG9SMAD2Q15796442
PSG9BAIAP3O94812411
PSG9LGALS1P09382395
PSG9PSG2P11465390
PSG9PSG8Q9UQ74386
PSG9PSG1P11462383
PSG9PSG3Q16557383
PSG9A0A096LNM5A0A096LNM5382
PSG9C19orf53Q9UNZ5370
PSG9TFPI2P48307358

IntAct

23 interactions, top by confidence:

ABTypeScore
DSCAMPSG9psi-mi:“MI:0915”(physical association)0.540
PSG9DSCAMpsi-mi:“MI:0407”(direct interaction)0.540
PSG9CCDC85Cpsi-mi:“MI:0914”(association)0.530
TGFB1PSG9psi-mi:“MI:0407”(direct interaction)0.440
PSG9HSPD1psi-mi:“MI:0915”(physical association)0.400
DCCPSG9psi-mi:“MI:0915”(physical association)0.400
FGFR4PSG9psi-mi:“MI:0915”(physical association)0.400
PSG9LEPpsi-mi:“MI:0915”(physical association)0.400
PSG9AXLpsi-mi:“MI:0915”(physical association)0.400
PSG9ARMS2psi-mi:“MI:0915”(physical association)0.370
PSG9SMAD2psi-mi:“MI:0915”(physical association)0.370
PSG9PTPN12psi-mi:“MI:0915”(physical association)0.370
SMAD4PSG9psi-mi:“MI:0915”(physical association)0.370
PSG3PSG1psi-mi:“MI:0914”(association)0.350
SMAD9VSIG8psi-mi:“MI:0914”(association)0.350
PSG9EEF1A1psi-mi:“MI:0915”(physical association)0.000
PSG9RIF1psi-mi:“MI:0915”(physical association)0.000

BioGRID (44): PSG9 (Affinity Capture-MS), PSG9 (Affinity Capture-MS), ATP6V1E1 (Affinity Capture-MS), SECISBP2L (Affinity Capture-MS), COLGALT2 (Affinity Capture-MS), NEFL (Affinity Capture-MS), NEFM (Affinity Capture-MS), SHCBP1 (Affinity Capture-MS), APOL2 (Affinity Capture-MS), CCDC85C (Affinity Capture-MS), ZMYM1 (Affinity Capture-MS), ZBTB44 (Affinity Capture-MS), CELSR3 (Affinity Capture-MS), PSG9 (Affinity Capture-MS), SHCBP1 (Affinity Capture-MS)

ESM2 similar proteins: A0A0K2S4Q6, A6NI73, O75019, O75022, O75023, O76036, P0C191, P11464, P11465, P13688, P31997, P40199, P59901, Q00887, Q00888, Q00889, Q08708, Q0V881, Q15238, Q16557, Q28110, Q496F6, Q5M7U7, Q5SQ64, Q6GTX8, Q6ISS4, Q6MG56, Q6PI73, Q863H2, Q863H3, Q8C567, Q8IYS5, Q8MHY9, Q8MJZ2, Q8N149, Q8N423, Q8N6C8, Q8VBT3, Q95JB9, Q96LA5

Diamond homologs: A0A0B4J1L0, D3ZQE1, E9QA28, O75871, P06731, P11464, P11465, P13688, P16573, P31809, P31997, P40198, P40199, Q00887, Q00888, Q00889, Q13046, Q14002, Q15238, Q16557, Q2WEN9, Q3KPI0, Q3UKK2, Q61400, Q63111, Q810J1, Q925P2, Q9D2Z1, Q9UQ72, Q9UQ74, A0A140LHF2, P0DP72, P35329, Q15223, Q15746, Q58EX2, Q6V4S5, Q96FE5, Q9D1T0, Q9GL76

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

243 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance213
Likely benign18
Benign1

Top pathogenic / likely-pathogenic (0)

SpliceAI

684 predictions. Top by Δscore:

VariantEffectΔscore
19:43258334:T:TAdonor_gain1.0000
19:43258335:C:Adonor_gain1.0000
19:43269362:CCTCA:Cdonor_loss1.0000
19:43269363:CTCAC:Cdonor_loss1.0000
19:43269364:TCA:Tdonor_loss1.0000
19:43269365:CAC:Cdonor_loss1.0000
19:43258453:CCAT:Cacceptor_gain0.9900
19:43258454:CATC:Cacceptor_gain0.9900
19:43261858:A:ACdonor_gain0.9900
19:43261859:C:CCdonor_gain0.9900
19:43262139:C:CCacceptor_gain0.9900
19:43267782:A:ACdonor_gain0.9900
19:43267783:C:CCdonor_gain0.9900
19:43268150:C:CCacceptor_gain0.9900
19:43258317:T:TAdonor_gain0.9800
19:43259134:CGCTG:Cacceptor_gain0.9800
19:43259136:C:CCacceptor_gain0.9800
19:43259138:G:Cacceptor_gain0.9800
19:43267777:CACT:Cdonor_loss0.9800
19:43267778:ACTC:Adonor_loss0.9800
19:43267780:TCACA:Tdonor_loss0.9800
19:43267781:CA:Cdonor_loss0.9800
19:43267782:ACAGT:Adonor_loss0.9800
19:43267783:C:Tdonor_loss0.9800
19:43267783:CA:Cdonor_gain0.9800
19:43268145:TGATG:Tacceptor_gain0.9800
19:43268146:GATG:Gacceptor_gain0.9800
19:43268148:TG:Tacceptor_gain0.9800
19:43269366:A:ACdonor_gain0.9800
19:43269367:C:CCdonor_gain0.9800

AlphaMissense

2764 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
19:43258347:C:AW366C0.975
19:43258347:C:GW366C0.975
19:43258916:C:GC310S0.975
19:43258917:A:TC310S0.975
19:43261885:A:CS228R0.970
19:43261885:A:TS228R0.970
19:43261887:T:GS228R0.970
19:43267894:A:GL107P0.968
19:43262029:C:AW180C0.963
19:43262029:C:GW180C0.963
19:43268015:A:GW67R0.963
19:43268015:A:TW67R0.963
19:43267898:A:GS106P0.957
19:43268013:C:AW67C0.957
19:43268013:C:GW67C0.957
19:43261919:C:GC217S0.956
19:43261920:A:TC217S0.956
19:43262031:A:GW180R0.956
19:43262031:A:TW180R0.956
19:43258349:A:GW366R0.955
19:43258349:A:TW366R0.955
19:43262063:C:GC169S0.953
19:43262064:A:TC169S0.953
19:43262064:A:GC169R0.950
19:43262063:C:TC169Y0.949
19:43258264:C:GC394S0.948
19:43258265:A:TC394S0.948
19:43258271:A:CY392D0.947
19:43258917:A:GC310R0.945
19:43258385:A:GC354R0.944

dbSNP variants (sampled 300 via entrez): RS1000192734 (19:43262230 C>A,T), RS1000257509 (19:43266967 A>C), RS1000332382 (19:43267192 A>T), RS1000454716 (19:43254765 AAG>A), RS1000594992 (19:43266322 A>G), RS1000609786 (19:43270114 C>T), RS1000798076 (19:43262975 G>A), RS1001017095 (19:43269499 G>A,C), RS1001180695 (19:43260848 C>A), RS1001321507 (19:43255504 A>G), RS1001331384 (19:43255778 T>A), RS1001603392 (19:43263853 G>A), RS1001625996 (19:43267487 C>G), RS1001676970 (19:43264072 G>A,C,T), RS1002194623 (19:43260696 C>G)

Disease associations

OMIM: gene MIM:176398 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

1 associations (top):

StudyTraitp-value
GCST006585_2665Blood protein levels1.000000e-07

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

28 total (human), top 28 by PubMed support.

ChemicalActions (top 5)PubMed papers
Aflatoxin B1decreases methylation, increases expression2
aristolochic acid Idecreases expression1
sotorasibaffects cotreatment, decreases expression1
sodium arsenitedecreases expression1
zinc chromateincreases abundance, increases expression1
potassium chromate(VI)increases expression1
chromium hexavalent ionincreases abundance, increases expression1
fipronilaffects cotreatment, increases expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideincreases expression1
abrineincreases expression1
trametinibaffects cotreatment, decreases expression1
NVP-BKM120affects cotreatment, decreases expression1
2,3,5-trichloro-6-phenyl-(1,4)benzoquinonedecreases expression1
Irinotecanaffects cotreatment, increases response to substance1
Arsenicaffects methylation1
Benzo(a)pyreneincreases methylation1
Leucovorinaffects cotreatment, increases response to substance1
Copperaffects binding, increases expression1
DEETaffects cotreatment, increases expression1
Disulfiramaffects binding, increases expression1
Fluorouracilaffects cotreatment, increases response to substance1
Lucanthoneincreases expression1
Methylcholanthreneaffects binding, increases reaction1
Silicon Dioxideincreases expression1
Valproic Aciddecreases expression1
Cyclosporineincreases expression1
beta-Naphthoflavonedecreases expression1
S-Nitrosoglutathioneincreases expression1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.

No linked Atlas pages yet — the cross-entity mesh grows as the corpus expands.