GAS1

gene
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Summary

GAS1 (growth arrest specific 1, HGNC:4165) is a protein-coding gene on chromosome 9q21.33, encoding Growth arrest-specific protein 1 (P54826). Specific growth arrest protein involved in growth suppression.

Growth arrest-specific 1 plays a role in growth suppression. GAS1 blocks entry to S phase and prevents cycling of normal and transformed cells. Gas1 is a putative tumor suppressor gene.

Source: NCBI Gene 2619 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): holoprosencephaly (Limited, ClinGen)
  • GWAS associations: 7
  • Clinical variants (ClinVar): 135 total
  • Phenotypes (HPO): 115
  • MANE Select transcript: NM_002048

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:4165
Approved symbolGAS1
Namegrowth arrest specific 1
Location9q21.33
Locus typegene with protein product
StatusApproved
Ensembl geneENSG00000180447
Ensembl biotypeprotein_coding
OMIM139185
Entrez2619

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 protein_coding

ENST00000298743

RefSeq mRNA: 1 — MANE Select: NM_002048 NM_002048

CCDS: CCDS6674

Canonical transcript exons

ENST00000298743 — 1 exons

ExonStartEnd
ENSE000014688938694436286947506

Expression profiles

Bgee: expression breadth ubiquitous, 276 present calls, max score 99.94.

FANTOM5 (CAGE): breadth broad, TPM avg 12.2774 / max 665.8413, expressed in 800 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter IDTPM avgSamples expressed
10122411.6673766
1012250.4926268
1012230.117566

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
germinal epithelium of ovaryUBERON:000130499.94gold quality
deciduaUBERON:000245099.81gold quality
parietal pleuraUBERON:000240099.52gold quality
pericardiumUBERON:000240799.40gold quality
synovial jointUBERON:000221799.26gold quality
superficial temporal arteryUBERON:000161498.99gold quality
renal glomerulusUBERON:000007498.82gold quality
adult organismUBERON:000702398.80gold quality
mammary ductUBERON:000176598.71gold quality
cauda epididymisUBERON:000436098.71gold quality
metanephric glomerulusUBERON:000473698.65gold quality
skin of hipUBERON:000155498.59gold quality
vena cavaUBERON:000408798.19gold quality
epithelium of mammary glandUBERON:000324498.13gold quality
nippleUBERON:000203098.01gold quality
upper arm skinUBERON:000426397.79gold quality
caput epididymisUBERON:000435897.47gold quality
mucosa of paranasal sinusUBERON:000503097.37gold quality
pleuraUBERON:000097797.24gold quality
cardiac muscle of right atriumUBERON:000337997.20gold quality
upper leg skinUBERON:000426297.18gold quality
corpus epididymisUBERON:000435997.16gold quality
hair follicleUBERON:000207396.91gold quality
tracheaUBERON:000312696.81gold quality
saphenous veinUBERON:000731896.78gold quality
calcaneal tendonUBERON:000370196.76gold quality
urethraUBERON:000005796.74gold quality
choroid plexus epitheliumUBERON:000391196.70gold quality
diaphragmUBERON:000110396.69gold quality
myometriumUBERON:000129696.63gold quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 2.

ExperimentMarker?Max mean expression
E-MTAB-8530yes481.48
E-ANND-3yes23.80
E-MTAB-10290no257.02

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): DMTF1, MYC, STAT5A, TP53

miRNA regulators (miRDB)

69 targeting GAS1, 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-3163100.0077.238605
HSA-MIR-6798-5P100.0065.77699
HSA-MIR-34A-5P99.9971.211784
HSA-MIR-449A99.9971.051776
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-428299.9975.366408
HSA-MIR-33A-5P99.9968.621055
HSA-MIR-33B-5P99.9968.581062
HSA-MIR-499A-5P99.9870.791323
HSA-MIR-34C-5P99.9770.451577
HSA-MIR-449B-5P99.9770.261580
HSA-MIR-314899.9775.066478
HSA-MIR-6793-5P99.9765.95758
HSA-MIR-493-5P99.9672.472382
HSA-MIR-568899.9673.234504
HSA-MIR-495-3P99.9672.814197
HSA-MIR-548AJ-3P99.9673.385345
HSA-MIR-548X-3P99.9673.385345
HSA-MIR-4666A-3P99.9671.713434
HSA-MIR-391099.9571.132227
HSA-MIR-548J-3P99.9472.614881
HSA-MIR-548AE-3P99.9372.664867
HSA-MIR-548AH-3P99.9372.544872
HSA-MIR-548AM-3P99.9372.544872
HSA-MIR-548AQ-3P99.9372.664867
HSA-MIR-7-1-3P99.9171.534384
HSA-MIR-7-2-3P99.9171.404394
HSA-MIR-124-3P99.8973.743043
HSA-MIR-506-3P99.8973.553057
HSA-MIR-5582-3P99.8672.484221

Literature-anchored findings (GeneRIF, showing 26)

  • Gas1 is related to the GDNF alpha receptors and regulates Ret signaling (PMID:16551639)
  • This review considers the possible involvement of GAS1 in genetic diseases, stem cell renewal, and cancer growth through its cooperative activity with Hedgehog (HH) growth factor and the HH receptor. (PMID:17726382)
  • Gas1 is a molecule involved in cell arrest that can induce apoptosis when over-expressed in different cell lines. (PMID:18394855)
  • Gas1 has all the expected properties of a melanoma tumor suppressor: suppression of metastasis in a spontaneous metastasis assay, promotion of apoptosis following dissemination of cells to secondary sites, and down-regulation in human melanoma metastasis. (PMID:18981472)
  • Results present evidence demonstrating that Gas1 exerts its effects inhibiting cell growth and inducing apoptosis of glioma cells in the absence of Shh. (PMID:19460624)
  • Results suggest that GAS1 might be a target to overcome multidrug resistance and provide a novel approach to identifying candidate genes that suppress chemoresistance of gastric cancers. (PMID:19638344)
  • GAS1 is preferentially expressed by human bulge cells, compared to differentiated hair follicle keratinocytes (PMID:20050020)
  • GAS1 could be considered a candidate locus for one of the types of human holoprosencephaly. (PMID:20583177)
  • Growth arrest-specific gene 1 contributes to predicting metastasis or recurrence in stage II and III colorectal cancer. (PMID:21111449)
  • Gas1 is a novel APP-interacting protein involved in the control of APP maturation and processing. (PMID:21357679)
  • we demonstrate that sequence variants in GAS1 can impair its physical interaction with SHH, suggesting a decrease in the SHH downstream signaling cascade as a pathogenic mechanism of disease. (PMID:21842183)
  • Interference of endoplasmic reticulum to Golgi transport increased immature amyloid beta protein precursor accumulation upon Gas1 expression in lipid raft fractions. (PMID:21971401)
  • GAS1 induced the activity of caspase-3 and resulting in apoptosis of the cells. (PMID:22311470)
  • Growth arrest-specific gene 1 is downregulated and inhibits tumor growth in gastric cancer. (PMID:22846196)
  • GAS1 is a novel endogenous inhibitor of glomerular mesangial cell proliferation. (PMID:23254899)
  • This review summarizes the structure of Gas1 and molecular mechanism of action during embryonic development and cellular functions. (PMID:25429664)
  • solutions structure and biophysical characterization of the multifaceted signalling effector protein growth arrest specific-1 (PMID:25888394)
  • the synergistic effect of Gas1 inhibition and GDNF against glutamate-induced cell injury in human SH-SY5Y neuroblastoma cells, is reported. (PMID:26215053)
  • These results demonstrated that miR-184 and the GAS1/Akt pathway may be a potential therapeutic target for intervertebral disc degeneration. (PMID:26805687)
  • Studies establish Gas1 as a negative regulator in colorectal cancer. (PMID:27401611)
  • WT1 modulates Akt/JNK signaling pathway mediated autophagy by controlling the expression of growth arrest-specific 1 (Gas1). (PMID:27453337)
  • Downregulation of GAS1 is associated with clear cell renal cell carcinoma. (PMID:28184927)
  • t is relevant to investigate the potential additive effect of the overexpression of GAS1 and PTEN on tumor growth. In particular, we employed secreted forms of both GAS1 (tGAS1) and PTEN (PTEN-LONG, or PTEN-L) and tested their combined effect on glioma cells. (PMID:29941984)
  • This study has identified Gas1 as a novel factor and mechanism through which microglia arrest the growth of human brain tumor-initiating cells for anti-tumor property. (PMID:30327548)
  • Gas1 Regulates Patterning of the Murine and Human Dentitions through Sonic Hedgehog. (PMID:34796774)
  • TCF7L1 regulates colorectal cancer cell migration by repressing GAS1 expression. (PMID:38816533)

Cross-species orthologs

4 orthologs

OrganismSymbolGene ID
danio_reriogas1bENSDARG00000067984
danio_reriogas1aENSDARG00000077298
mus_musculusGas1ENSMUSG00000052957
rattus_norvegicusGas1ENSRNOG00000065398

Protein

Protein identifiers

Growth arrest-specific protein 1P54826 (reviewed: P54826)

All UniProt accessions (1): P54826

UniProt curated annotations — full annotation on UniProt →

Function. Specific growth arrest protein involved in growth suppression. Blocks entry to S phase. Prevents cycling of normal and transformed cells. Binds 20(S)-hydroxycholesterol (20(S)-OHC).

Subcellular location. Cell membrane.

RefSeq proteins (1): NP_002039* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR016017GDNF/GAS1Domain
IPR039596GAS1Family

Pfam: PF02351

UniProt features (8 total): signal peptide 1, chain 1, propeptide 1, region of interest 1, compositionally biased region 1, lipid moiety-binding region 1, glycosylation site 1, sequence conflict 1

Structure

Experimental structures (PDB)

1 structures.

PDBMethodResolution (Å)
7RHQELECTRON MICROSCOPY3.53

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P54826-F171.860.33

Functional residue map

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

Post-translational modifications (1): 318

Glycosylation sites (1): 117

Function

Pathways and Gene Ontology

Reactome pathways

2 pathways

IDPathway
R-HSA-5632681Ligand-receptor interactions
R-HSA-5635838Activation of SMO

MSigDB gene sets: 480 (showing top): GSE45365_CD8A_DC_VS_CD11B_DC_IFNAR_KO_DN, WAMUNYOKOLI_OVARIAN_CANCER_LMP_DN, MODULE_52, BROWNE_HCMV_INFECTION_6HR_DN, GOBP_NEGATIVE_REGULATION_OF_PROTEOLYSIS, CHIARADONNA_NEOPLASTIC_TRANSFORMATION_KRAS_DN, LUCAS_HNF4A_TARGETS_DN, KEGG_HEDGEHOG_SIGNALING_PATHWAY, PAL_PRMT5_TARGETS_UP, KAAB_HEART_ATRIUM_VS_VENTRICLE_UP, GOBP_GROWTH, DACOSTA_UV_RESPONSE_VIA_ERCC3_UP, GOBP_VESICLE_MEDIATED_TRANSPORT, TOMLINS_PROSTATE_CANCER_DN, SARRIO_EPITHELIAL_MESENCHYMAL_TRANSITION_DN

GO Biological Process (9): regulation of smoothened signaling pathway (GO:0008589), negative regulation of protein processing (GO:0010955), cellular response to vascular endothelial growth factor stimulus (GO:0035924), regulation of apoptotic process (GO:0042981), cell fate commitment (GO:0045165), negative regulation of mitotic cell cycle (GO:0045930), developmental growth (GO:0048589), regulation of ER to Golgi vesicle-mediated transport (GO:0060628), regulation of cell cycle (GO:0051726)

GO Molecular Function (2): oxysterol binding (GO:0008142), protein binding (GO:0005515)

GO Cellular Component (3): plasma membrane (GO:0005886), membrane (GO:0016020), side of membrane (GO:0098552)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Hedgehog ‘on’ state2

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
membrane2
cellular anatomical structure2
smoothened signaling pathway1
regulation of signal transduction1
protein processing1
negative regulation of proteolysis1
regulation of protein processing1
negative regulation of protein maturation1
cellular response to growth factor stimulus1
apoptotic process1
regulation of programmed cell death1
cell differentiation1
cellular developmental process1
mitotic cell cycle1
regulation of mitotic cell cycle1
negative regulation of cell cycle1
developmental process1
growth1
endoplasmic reticulum to Golgi vesicle-mediated transport1
regulation of intracellular transport1
regulation of vesicle-mediated transport1
cell cycle1
regulation of cellular process1
sterol binding1
binding1
cell periphery1
leaflet of membrane bilayer1

Protein interactions and networks

STRING

1098 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
GAS1SHHQ15465992
GAS1PTCH1Q13635983
GAS1CDONQ4KMG0958
GAS1GAS2O43903930
GAS1BOCQ9BWV1814
GAS1HHIPQ96QV1737
GAS1ZIC2O95409727
GAS1DHHO43323697
GAS1DISP1Q96F81694
GAS1IHHQ14623677
GAS1SIX3O95343620
GAS1RAB23Q9ULC3602
GAS1SMOQ99835595
GAS1GLI1P08151584
GAS1GLI2P10070582

IntAct

8 interactions, top by confidence:

ABTypeScore
GAS1RETpsi-mi:“MI:0407”(direct interaction)0.440
GPC1SNAP23psi-mi:“MI:0915”(physical association)0.400
GPC1GANABpsi-mi:“MI:0915”(physical association)0.400
CERS2VPS37Cpsi-mi:“MI:0914”(association)0.350
SLURP1MANBApsi-mi:“MI:0914”(association)0.350
KRASIGKV2D-24psi-mi:“MI:0914”(association)0.350
KRASIGKV2D-29psi-mi:“MI:0914”(association)0.350

BioGRID (15): GAS1 (Two-hybrid), GAS1 (Affinity Capture-RNA), GAS1 (Affinity Capture-MS), GAS1 (Affinity Capture-MS), GAS1 (Affinity Capture-MS), GAS1 (Two-hybrid), GAS1 (Affinity Capture-MS), GAS1 (Proximity Label-MS), PTPRA (Reconstituted Complex), GAS1 (Proximity Label-MS), GAS1 (Proximity Label-MS), GAS1 (Proximity Label-MS), GAS1 (Proximity Label-MS), GAS1 (Proximity Label-MS), GAS1 (Affinity Capture-RNA)

ESM2 similar proteins: A4IIA2, B3F211, O75129, O94907, P01180, P08833, P10769, P12843, P13384, P15473, P16611, P17936, P18065, P19336, P20722, P20959, P21743, P21744, P22692, P24591, P24592, P24593, P24594, P24853, P24854, P34007, P35572, P47876, P47877, P47878, P47879, P47880, P49705, P51693, P54826, Q03157, Q05716, Q05717, Q05718, Q07079

Diamond homologs: P54826, Q01721

SIGNOR signaling

1 interactions.

AEffectBMechanism
DMTF1“down-regulates quantity by repression”GAS1“transcriptional regulation”

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance93
Likely benign31
Benign9

Top pathogenic / likely-pathogenic (0)

SpliceAI

11 predictions. Top by Δscore:

VariantEffectΔscore
9:86947062:A:ACdonor_gain0.8600
9:86947063:C:CCdonor_gain0.8600
9:86946882:T:TAdonor_gain0.4000
9:86947064:T:Cdonor_gain0.3300
9:86946974:T:TAdonor_gain0.2900
9:86947145:G:Adonor_gain0.2800
9:86947056:AGG:Adonor_gain0.2400
9:86947058:G:Adonor_gain0.2300
9:86947054:AGAGG:Adonor_gain0.2200
9:86946578:A:ACdonor_gain0.2000
9:86946579:C:CCdonor_gain0.2000

AlphaMissense

2200 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
9:86946211:C:TC190Y1.000
9:86946433:A:GL116P1.000
9:86946633:C:AW49C1.000
9:86946633:C:GW49C1.000
9:86946052:C:GC243S0.999
9:86946053:A:GC243R0.999
9:86946053:A:TC243S0.999
9:86946072:C:AK236N0.999
9:86946072:C:GK236N0.999
9:86946084:G:CC232W0.999
9:86946085:C:AC232F0.999
9:86946085:C:GC232S0.999
9:86946085:C:TC232Y0.999
9:86946086:A:GC232R0.999
9:86946086:A:TC232S0.999
9:86946104:C:AG226C0.999
9:86946108:G:CC224W0.999
9:86946109:C:AC224F0.999
9:86946109:C:GC224S0.999
9:86946109:C:TC224Y0.999
9:86946110:A:GC224R0.999
9:86946110:A:TC224S0.999
9:86946114:G:CC222W0.999
9:86946115:C:AC222F0.999
9:86946115:C:TC222Y0.999
9:86946116:A:GC222R0.999
9:86946171:G:CC203W0.999
9:86946172:C:GC203S0.999
9:86946173:A:GC203R0.999
9:86946173:A:TC203S0.999

dbSNP variants (sampled 300 via entrez): RS1000854782 (9:86945757 A>C), RS1000871454 (9:86944777 C>A,T), RS1001746523 (9:86948866 C>T), RS1001770983 (9:86946308 G>GGCCGCCCGCGCC), RS1002275565 (9:86945338 T>C), RS1003168930 (9:86949390 C>T), RS1003410023 (9:86948933 G>A,C), RS1003690604 (9:86944076 G>A), RS1004186486 (9:86947174 C>T), RS1005038688 (9:86948953 T>C), RS1005191877 (9:86946272 G>A,C), RS1005982395 (9:86945250 T>C), RS1006156477 (9:86945525 G>A), RS1007414827 (9:86944187 G>T), RS1007459037 (9:86947093 G>T)

Disease associations

OMIM: gene MIM:139185 | disease phenotypes: MIM:236100

GenCC curated gene-disease

DiseaseClassificationInheritance
holoprosencephalyLimitedAutosomal dominant

ClinGen Gene-Disease Validity (1)

Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.

DiseaseClassificationInheritance
holoprosencephalyLimitedAD

Mondo (2): holoprosencephaly 1 (MONDO:0009349), holoprosencephaly (MONDO:0016296)

Orphanet (1): Holoprosencephaly (Orphanet:2162)

HPO phenotypes

115 total (30 of 115 shown, HPO-id order):

HPOTerm
HP:0000062Ambiguous genitalia
HP:0000104Renal agenesis
HP:0000119Abnormality of the genitourinary system
HP:0000161Median cleft upper lip
HP:0000175Cleft palate
HP:0000193Bifid uvula
HP:0000202Orofacial cleft
HP:0000218High palate
HP:0000238Hydrocephalus
HP:0000252Microcephaly
HP:0000256Macrocephaly
HP:0000322Short philtrum
HP:0000407Sensorineural hearing impairment
HP:0000446Narrow nasal bridge
HP:0000453Choanal atresia
HP:0000457Depressed nasal ridge
HP:0000463Anteverted nares
HP:0000478Abnormality of the eye
HP:0000486Strabismus
HP:0000601Hypotelorism
HP:0000612Iris coloboma
HP:0000708Atypical behavior
HP:0000716Depression
HP:0000736Short attention span
HP:0000737Irritability
HP:0000739Anxiety
HP:0000741Apathy
HP:0000772Abnormal rib morphology
HP:0000818Abnormality of the endocrine system
HP:0000821Hypothyroidism

GWAS associations

7 associations (top):

StudyTraitp-value
GCST001208_3Insulin resistance/response4.000000e-06
GCST004641_26Borderline personality disorder7.000000e-06
GCST006585_670Blood protein levels2.000000e-06
GCST006979_358Heel bone mineral density1.000000e-13
GCST008660_6Lung function in never smokers (high FEV1 vs average FEV1)3.000000e-07
GCST009723_79Vertical cup-disc ratio (adjusted for vertical disc diameter)8.000000e-07
GCST009724_18Vertical cup-disc ratio (multi-trait analysis)9.000000e-10

EFO canonical traits (3, from GWAS)

EFO IDTrait name
EFO:0009270heel bone mineral density
EFO:0004314forced expiratory volume
EFO:0006939cup-to-disc ratio measurement

MeSH disease descriptors (1)

DescriptorNameTree numbers
D016142HoloprosencephalyC05.660.207.410; C10.500.034.875; C16.131.077.410; C16.131.260.380; C16.131.621.207.410; C16.131.666.034.875; C16.320.180.380

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

72 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Aciddecreases expression, increases expression, increases methylation5
Cadmium Chloridedecreases expression, increases expression4
Acetaminophendecreases expression3
Estradiolaffects cotreatment, decreases expression, increases expression, affects expression3
Tobacco Smoke Pollutiondecreases expression3
mercuric bromidedecreases expression, affects cotreatment2
entinostatdecreases expression, affects cotreatment2
Arsenicincreases methylation, decreases expression, increases abundance2
Benzo(a)pyreneaffects methylation, decreases expression2
Formaldehydedecreases expression, increases expression2
Phenylmercuric Acetateaffects cotreatment, decreases expression2
Silicon Dioxidedecreases expression2
Smokedecreases expression2
Zidovudineaffects cotreatment, decreases expression2
p-Chloromercuribenzoic Acidaffects cotreatment, decreases expression2
Particulate Matteraffects cotreatment, decreases expression, increases abundance2
methyleugenoldecreases expression1
methylselenic acidincreases expression1
sodium arsenatedecreases expression, increases abundance1
2-butenaldecreases expression1
sulforaphanedecreases expression1
sodium arsenitedecreases expression1
cobaltous chlorideaffects cotreatment, decreases expression1
tobacco tardecreases expression, decreases reaction1
diallyl disulfidedecreases expression, decreases reaction1
lead chloridedecreases expression, affects cotreatment1
hydroquinonedecreases expression1
1-nitropyrenedecreases expression1
cadmium sulfateaffects cotreatment, decreases expression1
beta-methylcholineaffects expression1

Clinical trials (associated diseases)

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

TrialPhaseStatusTitle
NCT00005016Not specifiedCOMPLETEDStudy of the Experiences and Needs of Parents Continuing a Pregnancy Following a Prenatal Diagnosis of Holopresencephaly
NCT00088426Not specifiedCOMPLETEDClinical and Genetic Studies on Holoprosencephaly
NCT00645645Not specifiedCOMPLETEDA Study of the Genetic Analysis of Brain Disorders
NCT04691414Not specifiedCOMPLETEDRetrospective Study Using Next Generation Sequencing (NGS) on Biological Samples to Improve Genetic Counseling for Patients With Previously Explored Craniofacial Midline Defects.