EVA1A

gene
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Also known as FLJ13391

Summary

EVA1A (eva-1 homolog A, regulator of programmed cell death, HGNC:25816) is a protein-coding gene on chromosome 2p12, encoding Protein eva-1 homolog A (Q9H8M9). Acts as a regulator of programmed cell death, mediating both autophagy and apoptosis.

Predicted to act upstream of or within several processes, including TOR signaling; cardiac left ventricle morphogenesis; and connective tissue replacement. Located in intracellular membrane-bounded organelle and plasma membrane.

Source: NCBI Gene 84141 — RefSeq curated summary.

At a glance

  • GWAS associations: 6
  • Clinical variants (ClinVar): 51 total
  • MANE Select transcript: NM_001135032

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:25816
Approved symbolEVA1A
Nameeva-1 homolog A, regulator of programmed cell death
Location2p12
Locus typegene with protein product
StatusApproved
AliasesFLJ13391
Ensembl geneENSG00000115363
Ensembl biotypeprotein_coding
OMIM618990
Entrez84141

Gene structure

Transcript identifiers

Ensembl transcripts: 67 — 63 protein_coding, 4 protein_coding_CDS_not_defined

ENST00000233712, ENST00000393913, ENST00000410010, ENST00000410071, ENST00000410113, ENST00000432649, ENST00000452003, ENST00000485891, ENST00000486489, ENST00000486696, ENST00000490746, ENST00000910257, ENST00000910258, ENST00000910259, ENST00000910260, ENST00000910261, ENST00000910262, ENST00000910263, ENST00000910264, ENST00000910265, ENST00000910266, ENST00000910267, ENST00000910268, ENST00000910269, ENST00000910270, ENST00000910271, ENST00000910272, ENST00000910273, ENST00000910274, ENST00000910275, ENST00000910276, ENST00000910277, ENST00000910278, ENST00000910279, ENST00000910280, ENST00000910281, ENST00000910282, ENST00000910283, ENST00000910284, ENST00000910285, ENST00000910286, ENST00000910287, ENST00000910288, ENST00000910289, ENST00000910290, ENST00000910291, ENST00000910292, ENST00000910293, ENST00000910294, ENST00000910295, ENST00000910296, ENST00000910297, ENST00000910298, ENST00000910299, ENST00000910300, ENST00000910301, ENST00000910302, ENST00000910303, ENST00000910304, ENST00000910305, ENST00000940185, ENST00000940186, ENST00000956454, ENST00000956455, ENST00000956456, ENST00000956457, ENST00000956458

RefSeq mRNA: 4 — MANE Select: NM_001135032 NM_001135032, NM_001369524, NM_001369525, NM_032181

CCDS: CCDS1959

Canonical transcript exons

ENST00000393913 — 4 exons

ExonStartEnd
ENSE000008467847549231875493609
ENSE000010454347552236575522487
ENSE000019490017556068075560939
ENSE000036498887551805675518208

Expression profiles

Bgee: expression breadth ubiquitous, 165 present calls, max score 95.79.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 14.4590 / max 155.1186, expressed in 1179 samples.

FANTOM5 promoters (10 alternative TSS)

Promoter IDTPM avgSamples expressed
292768.35321112
292785.6785938
292750.2083121
292770.085822
292730.047110
292810.028412
292720.02497
292800.021812
292740.00976
292790.00132

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
right lobe of liverUBERON:000111495.79gold quality
cartilage tissueUBERON:000241893.95gold quality
liverUBERON:000210793.68gold quality
body of pancreasUBERON:000115091.08gold quality
metanephros cortexUBERON:001053386.90gold quality
pancreasUBERON:000126486.51gold quality
upper lobe of left lungUBERON:000895285.66gold quality
adult mammalian kidneyUBERON:000008285.52gold quality
upper lobe of lungUBERON:000894884.72gold quality
placentaUBERON:000198784.37gold quality
spleenUBERON:000210682.59gold quality
right lungUBERON:000216781.82gold quality
lungUBERON:000204881.44gold quality
stromal cell of endometriumCL:000225581.39gold quality
islet of LangerhansUBERON:000000681.35gold quality
kidneyUBERON:000211380.00gold quality
cortex of kidneyUBERON:000122579.63gold quality
endocervixUBERON:000045878.85gold quality
olfactory segment of nasal mucosaUBERON:000538674.99gold quality
palpebral conjunctivaUBERON:000181274.96gold quality
metanephrosUBERON:000008174.09gold quality
pancreatic ductal cellCL:000207973.91silver quality
right uterine tubeUBERON:000130273.40gold quality
lower lobe of lungUBERON:000894972.40gold quality
tibialis anteriorUBERON:000138571.90silver quality
caput epididymisUBERON:000435871.62gold quality
parotid glandUBERON:000183171.47gold quality
corpus epididymisUBERON:000435971.43gold quality
ectocervixUBERON:001224971.43gold quality
left lobe of thyroid glandUBERON:000112071.21gold quality

Single-cell (SCXA)

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

ExperimentMarker?Max mean expression
E-ANND-3yes14.54

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

57 targeting EVA1A, 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-5692A100.0074.406850
HSA-MIR-5011-5P100.0083.465820
HSA-MIR-103A-3P99.9869.141595
HSA-MIR-10799.9869.141595
HSA-MIR-433-3P99.9869.371203
HSA-MIR-1213699.9872.815713
HSA-MIR-60799.9773.625593
HSA-MIR-1250-3P99.9670.044038
HSA-MIR-335-3P99.9373.364958
HSA-MIR-515-5P99.9269.822343
HSA-MIR-519E-5P99.9269.622358
HSA-MIR-450B-5P99.9271.483175
HSA-MIR-627-3P99.9071.423316
HSA-MIR-367199.9073.043897
HSA-MIR-380-3P99.8970.181978
HSA-MIR-3065-3P99.8770.251407
HSA-MIR-374C-5P99.8072.062910
HSA-MIR-655-3P99.8072.192909
HSA-MIR-431999.7669.832586
HSA-MIR-2116-3P99.7464.32889
HSA-MIR-430699.7270.503630
HSA-MIR-33A-3P99.7070.273362
HSA-MIR-7154-5P99.6970.521900
HSA-MIR-613499.6365.681537
HSA-MIR-129099.5969.902079
HSA-MIR-519D-5P99.4169.302057
HSA-MIR-125A-5P99.3670.591640
HSA-MIR-125B-5P99.3670.361662
HSA-MIR-584-3P99.3567.691082
HSA-MIR-185-5P99.3568.602497

Literature-anchored findings (GeneRIF, showing 17)

  • TMEM166 is a novel regulator involved in both autophagy and apoptosis. (PMID:17492404)
  • TMEM166 expression was widely down-regulated in the cancer tissues. (PMID:22495369)
  • Low TMEM166 mRNA and protein expression is associated with esophageal squamous cell carcinoma. (PMID:23098460)
  • The adenovirus-mediated increase of FAM176A inhibited the growth of the tumor cells. (PMID:24257118)
  • EVA1A interacts with the WD repeats of ATG16L1 through its C-terminal and promotes ATG12-ATG5/ATG16L1 complex recruitment to the autophagic membrane and enhances the formation of the autophagosome. (PMID:27490928)
  • Low EVA1A expression is associated with glioblastoma. (PMID:28185834)
  • results suggest that miR-125b plays a role in the resistance of HCC cells to chemotherapy via a mechanism involving the downregulation of EVA1A-mediated autophagy. (PMID:29749374)
  • Myc/Max dependent intronic long antisense noncoding RNA, EVA1A-AS, suppresses the expression of Myc/Max dependent anti-proliferating gene EVA1A in a U2 dependent manner. (PMID:31754186)
  • Eva1a ameliorates atherosclerosis by promoting re-endothelialization of injured arteries via Rac1/Cdc42/Arpc1b. (PMID:31977009)
  • Eva-1 homolog A promotes papillary thyroid cancer progression and epithelial-mesenchymal transition via the Hippo signalling pathway. (PMID:32969138)
  • Transmembrane Protein 166 and its Significance. (PMID:33006534)
  • TMEM166 inhibits cell proliferation, migration and invasion in hepatocellular carcinoma via upregulating TP53. (PMID:33200377)
  • Eva1a inhibits NLRP3 activation to reduce liver ischemia-reperfusion injury via inducing autophagy in kupffer cells. (PMID:33556710)
  • The Degradation of TMEM166 by Autophagy Promotes AMPK Activation to Protect SH-SY5Y Cells Exposed to MPP(). (PMID:36078115)
  • Down-regulation of EVA1A by miR-103a-3p promotes hepatocellular carcinoma cells proliferation and migration. (PMID:36273122)
  • EVA1A (Eva-1 Homolog A) Promotes Endothelial Apoptosis and Inflammatory Activation Under Disturbed Flow Via Regulation of Autophagy. (PMID:36794585)
  • Increased TMEM166 Level in Patients with Postoperative Stroke after Carotid Endarterectomy. (PMID:38734302)

Cross-species orthologs

4 orthologs

OrganismSymbolGene ID
danio_rerioeva1aENSDARG00000061405
danio_rerioEVA1AENSDARG00000067927
mus_musculusEva1aENSMUSG00000035104
rattus_norvegicusEva1aENSRNOG00000007118

Paralogs (1): EVA1B (ENSG00000142694)

Protein

Protein identifiers

Protein eva-1 homolog AQ9H8M9 (reviewed: Q9H8M9)

Alternative names: Protein FAM176A, Transmembrane protein 166

All UniProt accessions (4): Q9H8M9, B8ZZF5, C9J5M4, C9JX09

UniProt curated annotations — full annotation on UniProt →

Function. Acts as a regulator of programmed cell death, mediating both autophagy and apoptosis.

Subcellular location. Endoplasmic reticulum membrane. Lysosome membrane.

Tissue specificity. Expressed in lung, kidney, liver, pancreas, placenta, but not in heart and skeletal muscle.

Similarity. Belongs to the EVA1 family.

RefSeq proteins (4): NP_001128504, NP_001356453, NP_001356454, NP_115557 (=MANE)

Domains & families (InterPro)

IDNameType
IPR039500EVA1_domDomain
IPR052461EVA1_A/BFamily

Pfam: PF14851

UniProt features (9 total): region of interest 2, modified residue 2, chain 1, transmembrane region 1, compositionally biased region 1, sequence variant 1, sequence conflict 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q9H8M9-F164.060.10

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 (2): 106, 114

Function

Pathways and Gene Ontology

Reactome pathways

2 pathways

IDPathway
R-HSA-381426Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs)
R-HSA-8957275Post-translational protein phosphorylation

MSigDB gene sets: 111 (showing top): GOBP_CARDIAC_CHAMBER_DEVELOPMENT, RODRIGUES_THYROID_CARCINOMA_ANAPLASTIC_UP, HNF3ALPHA_Q6, GOBP_CARDIAC_LEFT_VENTRICLE_MORPHOGENESIS, GOBP_CARDIAC_CHAMBER_MORPHOGENESIS, GOCC_VACUOLAR_MEMBRANE, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_DN, GOBP_GENERATION_OF_PRECURSOR_METABOLITES_AND_ENERGY, GOBP_ANIMAL_ORGAN_MORPHOGENESIS, SHETH_LIVER_CANCER_VS_TXNIP_LOSS_PAM4, GOBP_HEART_MORPHOGENESIS, OCT1_03, GOBP_CARDIAC_VENTRICLE_MORPHOGENESIS, GOBP_CARDIAC_VENTRICLE_DEVELOPMENT, AFP1_Q6

GO Biological Process (9): cardiac left ventricle morphogenesis (GO:0003214), energy reserve metabolic process (GO:0006112), autophagy (GO:0006914), apoptotic process (GO:0006915), post-embryonic development (GO:0009791), lung development (GO:0030324), TOR signaling (GO:0031929), connective tissue replacement (GO:0097709), heart development (GO:0007507)

GO Molecular Function (1): protein binding (GO:0005515)

GO Cellular Component (7): lysosomal membrane (GO:0005765), endoplasmic reticulum lumen (GO:0005788), endoplasmic reticulum membrane (GO:0005789), plasma membrane (GO:0005886), lysosome (GO:0005764), endoplasmic reticulum (GO:0005783), membrane (GO:0016020)

Reactome top-level categories

Rollup of top-2 pathways:

CategoryPathways
Metabolism of proteins1
Post-translational protein modification1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
animal organ development2
cardiac ventricle morphogenesis1
energy derivation by oxidation of organic compounds1
catabolic process1
transmembrane transport1
process utilizing autophagic mechanism1
programmed cell death1
apoptotic signaling pathway1
execution phase of apoptosis1
multicellular organism development1
multicellular organismal process1
respiratory tube development1
respiratory system development1
intracellular signal transduction1
tissue remodeling1
circulatory system development1
binding1
lysosome1
lytic vacuole membrane1
endoplasmic reticulum1
intracellular organelle lumen1
organelle membrane1
nuclear outer membrane-endoplasmic reticulum membrane network1
endoplasmic reticulum subcompartment1
membrane1
cell periphery1
lytic vacuole1
cytoplasm1
endomembrane system1
intracellular membrane-bounded organelle1
cellular anatomical structure1

Protein interactions and networks

STRING

572 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
EVA1AATG16L1Q676U5622
EVA1AMPZL2O60487610
EVA1AATG5Q9H1Y0533
EVA1AOSBPL3Q9H4L5500
EVA1ATM9SF1O15321479
EVA1AATG4BQ9Y4P1475
EVA1ASQSTM1Q13501474
EVA1AGCFC2P16383468
EVA1ATMEM59Q9BXS4467
EVA1AAGBL5Q8NDL9436
EVA1ANBR1Q14596429
EVA1AARPC1BO15143427
EVA1AOSBPL6Q9BZF3425
EVA1AATG13O75143424
EVA1ACASP3P42574423

IntAct

24 interactions, top by confidence:

ABTypeScore
GYPAEVA1Apsi-mi:“MI:0915”(physical association)0.670
GYPATCAF2psi-mi:“MI:0914”(association)0.640
SGTBEVA1Apsi-mi:“MI:0915”(physical association)0.560
MS4A13EVA1Apsi-mi:“MI:0915”(physical association)0.560
TSPAN4EVA1Apsi-mi:“MI:0915”(physical association)0.560
EDAAP3B1psi-mi:“MI:0914”(association)0.530
psi-mi:“MI:0914”(association)0.350
BSCL2QSOX1psi-mi:“MI:0914”(association)0.350
EFNB2TCAF2psi-mi:“MI:0914”(association)0.350
P2RY1GPC4psi-mi:“MI:0914”(association)0.350
PACC1IPO5psi-mi:“MI:0914”(association)0.350
EVA1AMTNR1Bpsi-mi:“MI:0915”(physical association)0.000
EVA1ASGTBpsi-mi:“MI:0915”(physical association)0.000
GYPAEVA1Apsi-mi:“MI:0915”(physical association)0.000
MS4A13EVA1Apsi-mi:“MI:0915”(physical association)0.000
TSPAN4EVA1Apsi-mi:“MI:0915”(physical association)0.000
EVA1APTNpsi-mi:“MI:0915”(physical association)0.000
EVA1ASUMO2psi-mi:“MI:0915”(physical association)0.000
SAT1EVA1Apsi-mi:“MI:0915”(physical association)0.000

BioGRID (17): EVA1A (Two-hybrid), ATG16L1 (Reconstituted Complex), ATG16L1 (Affinity Capture-Western), MAP1LC3B (Reconstituted Complex), EVA1A (Positive Genetic), EVA1A (Proximity Label-MS), EVA1A (Two-hybrid), PTN (Two-hybrid), GYPA (Two-hybrid), SGTB (Two-hybrid), MS4A13 (Two-hybrid), TSPAN4 (Two-hybrid), LAMP2 (Co-fractionation), EVA1A (Co-fractionation), EVA1A (Co-fractionation)

ESM2 similar proteins: A0A1B0GU71, A6QPI4, B2RV13, D4A6L0, E1BBQ2, F1LQY6, G3UW36, O08856, P15382, P53801, P55199, P56182, Q08CB3, Q0VF94, Q148E1, Q17RQ9, Q2KJ58, Q32Q90, Q4R5F9, Q4V8A6, Q4VA36, Q5I0I4, Q5NVI6, Q5R8Q2, Q5T6X4, Q5T848, Q5XII8, Q68EN5, Q6P767, Q8C419, Q8CHT6, Q8R143, Q8R1T1, Q8TBN0, Q8VDV3, Q8WUX9, Q90YH8, Q91WM6, Q91ZP9, Q96IL0

Diamond homologs: O88917, O88923, O94910, O95490, O97817, O97827, O97831, P58658, P58659, P86178, Q08CB3, Q68US5, Q80TR1, Q80TS3, Q8JZZ7, Q8K2Y3, Q91WM6, Q9H8M9, Q9HAR2, Q9NVM1, Q9SCV9, Q9XU98, Q9Z173, B3MFV7, B3N8M1, B4HS00, B4J780, B4KMZ1, B4P3A0, Q292N4

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance38
Likely benign4
Benign3

Top pathogenic / likely-pathogenic (0)

SpliceAI

956 predictions. Top by Δscore:

VariantEffectΔscore
2:75518051:CCTA:Cdonor_loss1.0000
2:75518052:CTA:Cdonor_loss1.0000
2:75518053:TAC:Tdonor_loss1.0000
2:75518054:ACC:Adonor_loss1.0000
2:75518055:CCTG:Cdonor_loss1.0000
2:75493610:C:CCacceptor_gain0.9900
2:75518204:CTCTT:Cacceptor_gain0.9900
2:75518206:CTT:Cacceptor_gain0.9900
2:75518207:TT:Tacceptor_gain0.9900
2:75518209:C:CCacceptor_gain0.9900
2:75518213:T:Cacceptor_gain0.9900
2:75522351:ATC:Adonor_gain0.9900
2:75522486:CT:Cacceptor_gain0.9900
2:75558636:A:Cdonor_gain0.9900
2:75560674:TCTTA:Tdonor_loss0.9900
2:75560675:CTTAC:Cdonor_loss0.9900
2:75560676:TTA:Tdonor_loss0.9900
2:75560677:TA:Tdonor_loss0.9900
2:75560678:ACCT:Adonor_loss0.9900
2:75493606:TTTT:Tacceptor_gain0.9800
2:75493606:TTTTC:Tacceptor_loss0.9800
2:75493607:TTT:Tacceptor_gain0.9800
2:75493608:TTCT:Tacceptor_loss0.9800
2:75493609:TCTG:Tacceptor_loss0.9800
2:75493610:CT:Cacceptor_loss0.9800
2:75493611:T:Aacceptor_loss0.9800
2:75517531:TTGA:Tdonor_gain0.9800
2:75518050:ACCT:Adonor_loss0.9800
2:75518207:TTC:Tacceptor_loss0.9800
2:75518208:TC:Tacceptor_loss0.9800

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000005417 (2:75540810 T>C), RS1000078635 (2:75552946 A>T), RS1000103183 (2:75492803 T>C), RS1000140244 (2:75569401 C>G,T), RS1000142590 (2:75517455 C>G,T), RS1000147106 (2:75528193 A>T), RS1000151585 (2:75511787 C>A), RS1000197533 (2:75522571 C>T), RS1000217501 (2:75521734 G>T), RS1000247092 (2:75551470 C>G), RS1000302108 (2:75557981 C>A), RS1000321131 (2:75518451 G>C,T), RS1000367177 (2:75565245 C>T), RS1000385542 (2:75524935 T>A), RS1000388335 (2:75504709 A>C)

Disease associations

OMIM: gene MIM:618990 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

6 associations (top):

StudyTraitp-value
GCST001762_51Obesity-related traits6.000000e-06
GCST001872_5Presence of antiphospholipid antibodies5.000000e-06
GCST002875_158Diisocyanate-induced asthma4.000000e-09
GCST005655_3Seborrheic dermatitis1.000000e-07
GCST007576_126Chronotype1.000000e-09
GCST010277_16Gout9.000000e-07

EFO canonical traits (2, from GWAS)

EFO IDTrait name
EFO:0006995response to diisocyanate
EFO:0008328chronotype measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
Cyclosporineincreases expression, decreases expression, affects cotreatment, decreases reaction4
Benzo(a)pyreneaffects methylation, decreases expression3
bisphenol Adecreases expression, affects cotreatment2
(+)-JQ1 compounddecreases expression2
Dexamethasonedecreases expression, affects cotreatment2
Aflatoxin B1affects expression, decreases expression2
Particulate Matterdecreases expression, increases abundance, increases expression2
FR900359increases phosphorylation1
quercitrindecreases expression1
trichostatin Aincreases expression1
arseniteaffects binding, increases reaction1
sodium arsenitedecreases expression1
S-(1,2-dichlorovinyl)cysteinedecreases reaction, affects cotreatment, increases expression1
perfluorooctane sulfonic aciddecreases expression1
K 7174decreases expression1
ICG 001increases expression1
darinaparsinincreases expression1
bisphenol Saffects cotreatment, decreases expression1
jinfukangaffects cotreatment, decreases expression1
NSC 689534increases expression1
Zoledronic Aciddecreases expression1
Leflunomideincreases expression1
Acetaminophendecreases expression1
Air Pollutantsdecreases expression, increases abundance1
Arsenicaffects methylation1
Caffeinedecreases phosphorylation1
Calcitrioldecreases expression1
Carbonyl Cyanide m-Chlorophenyl Hydrazoneaffects cotreatment, increases localization1
Chloroquinedecreases expression, decreases reaction, increases degradation1
Cisplatinaffects cotreatment, decreases expression1

Cellosaurus cell lines

1 cell lines: 1 cancer cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_E0CXUbigene HeLa EVA1A KOCancer cell lineFemale

Clinical trials (associated diseases)

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

  • Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): gout, seborrheic dermatitis