TMEM100

gene
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Also known as FLJ10970FLJ37856

Summary

TMEM100 (transmembrane protein 100, HGNC:25607) is a protein-coding gene on chromosome 17q22, encoding Transmembrane protein 100 (Q9NV29). Plays a role during embryonic arterial endothelium differentiation and vascular morphogenesis through the ACVRL1 receptor-dependent signaling pathway upon stimulation by bone morphogenetic proteins, such as GDF2/BMP9 and BMP10.

Involved in BMP signaling pathway. Located in several cellular components, including endoplasmic reticulum; perikaryon; and perinuclear region of cytoplasm.

Source: NCBI Gene 55273 — RefSeq curated summary.

At a glance

  • GWAS associations: 5
  • Clinical variants (ClinVar): 23 total
  • MANE Select transcript: NM_018286

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:25607
Approved symbolTMEM100
Nametransmembrane protein 100
Location17q22
Locus typegene with protein product
StatusApproved
AliasesFLJ10970, FLJ37856
Ensembl geneENSG00000166292
Ensembl biotypeprotein_coding
OMIM616334
Entrez55273

Gene structure

Transcript identifiers

Ensembl transcripts: 32 — 29 protein_coding, 2 protein_coding_CDS_not_defined, 1 retained_intron

ENST00000424486, ENST00000570586, ENST00000571679, ENST00000575685, ENST00000575734, ENST00000575806, ENST00000893789, ENST00000893790, ENST00000893791, ENST00000893792, ENST00000893793, ENST00000893794, ENST00000893795, ENST00000893796, ENST00000893797, ENST00000893798, ENST00000893799, ENST00000893800, ENST00000893801, ENST00000893802, ENST00000893803, ENST00000893804, ENST00000893805, ENST00000893806, ENST00000893807, ENST00000893808, ENST00000893809, ENST00000893810, ENST00000893811, ENST00000893812, ENST00000948271, ENST00000948272

RefSeq mRNA: 2 — MANE Select: NM_018286 NM_001099640, NM_018286

CCDS: CCDS11587

Canonical transcript exons

ENST00000424486 — 2 exons

ExonStartEnd
ENSE000026517745572261955722864
ENSE000026836815571962755721135

Expression profiles

Bgee: expression breadth ubiquitous, 242 present calls, max score 99.63.

FANTOM5 (CAGE): breadth broad, TPM avg 1.8414 / max 244.6875, expressed in 411 samples.

FANTOM5 promoters (8 alternative TSS)

Promoter IDTPM avgSamples expressed
1670851.5916382
1670920.138663
1670900.040021
1670890.037718
1670880.01445
1670910.00843
1670930.00562
1670840.00501

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
right lungUBERON:000216799.63gold quality
upper lobe of left lungUBERON:000895298.04gold quality
upper lobe of lungUBERON:000894897.92gold quality
adult organismUBERON:000702397.83gold quality
mucosa of stomachUBERON:000119996.46gold quality
lower lobe of lungUBERON:000894996.36gold quality
lungUBERON:000204895.84gold quality
synovial jointUBERON:000221795.07gold quality
seminal vesicleUBERON:000099894.45gold quality
corpus epididymisUBERON:000435994.28gold quality
adipose tissue of abdominal regionUBERON:000780891.98gold quality
omental fat padUBERON:001041491.85gold quality
peritoneumUBERON:000235891.77gold quality
caput epididymisUBERON:000435891.66gold quality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047391.40gold quality
adipose tissueUBERON:000101390.55gold quality
visceral pleuraUBERON:000240190.53gold quality
layer of synovial tissueUBERON:000761689.97gold quality
left ovaryUBERON:000211989.85gold quality
connective tissueUBERON:000238489.36gold quality
pericardiumUBERON:000240789.17gold quality
subcutaneous adipose tissueUBERON:000219089.14gold quality
right atrium auricular regionUBERON:000663189.10gold quality
right ovaryUBERON:000211888.31gold quality
fundus of stomachUBERON:000116087.96gold quality
cardiac atriumUBERON:000208187.76gold quality
tibial nerveUBERON:000132387.58gold quality
pleuraUBERON:000097787.55gold quality
endocervixUBERON:000045887.15gold quality
ovaryUBERON:000099287.10gold quality

Single-cell (SCXA)

Detected in 7 experiment(s), a significant marker in 7.

ExperimentMarker?Max mean expression
E-MTAB-6308yes4101.68
E-MTAB-6653yes2491.06
E-GEOD-114530yes1201.22
E-GEOD-124472yes933.85
E-HCAD-10yes644.93
E-MTAB-8205yes362.15
E-ANND-3no0.00

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

83 targeting TMEM100, 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-4795-3P100.0074.624024
HSA-MIR-3925-3P100.0069.951237
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-366299.9973.825684
HSA-MIR-499A-5P99.9870.791323
HSA-MIR-548N99.9871.944170
HSA-MIR-365899.9673.874379
HSA-MIR-548AA99.9670.643753
HSA-MIR-548AP-3P99.9670.643753
HSA-MIR-548T-3P99.9670.643753
HSA-MIR-302E99.9670.742669
HSA-MIR-7153-5P99.9468.891006
HSA-MIR-539-5P99.9370.302855
HSA-MIR-497-5P99.9271.832674
HSA-MIR-15A-5P99.9072.802787
HSA-MIR-15B-5P99.9072.782798
HSA-MIR-16-5P99.9072.802780
HSA-MIR-195-5P99.9072.812805
HSA-MIR-374A-5P99.9071.342923
HSA-MIR-808799.9069.551351
HSA-MIR-424-5P99.8971.902641
HSA-MIR-6838-5P99.8971.942690
HSA-MIR-380-3P99.8970.181978
HSA-MIR-302A-3P99.8971.231777
HSA-MIR-302B-3P99.8971.231777
HSA-MIR-302C-3P99.8971.201778
HSA-MIR-302D-3P99.8971.251777
HSA-MIR-30A-3P99.8769.742928
HSA-MIR-30D-3P99.8769.922917

Literature-anchored findings (GeneRIF, showing 12)

  • Loss of TMEM100 is associated with lung adenocarcinoma. (PMID:22223368)
  • This study demonistrated that TMEM100 is a novel, membrane-associated marker for enteric nerves and is as effective as PGP9.5 for identifying neuronal structures in the gastrointestinal tract. (PMID:23485812)
  • The current findings suggest that TMEM100 functions as a tumor suppressor in hepatocellular carcinoma metastasis and proliferation. (PMID:25978032)
  • experiments using another type of ER stress inducer demonstrated that calcium signaling was more important than ER stress in the regulation of TMEM100 expression (PMID:29690857)
  • TMEM100 is critical for inflammatory cytokines secretion and is regulated by MAPK (ERK/JNK) signaling pathway in hepatic stellate cells. (PMID:30639579)
  • TMEM100 expression suppresses metastasis and enhances sensitivity to chemotherapy in gastric cancer. (PMID:31188741)
  • TMEM100 induces cell death in nonsmall cell lung cancer via the activation of autophagy and apoptosis. (PMID:34184748)
  • TMEM100 negatively regulated by microRNA106b facilitates cellular apoptosis by suppressing survivin expression in NSCLC. (PMID:34278505)
  • Functional expression of TRPA1 channel, TRPV1 channel and TMEM100 in human odontoblasts. (PMID:34514518)
  • Histone deacetylase 6-mediated downregulation of TMEM100 expedites the development and progression of non-small cell lung cancer. (PMID:34687431)
  • Upregulation of DRG protein TMEM100 facilitates dry-skin-induced pruritus by enhancing TRPA1 channel function. (PMID:36514220)
  • Role of TMEM100 in mechanically insensitive nociceptor un-silencing. (PMID:37019973)

Cross-species orthologs

2 orthologs

OrganismSymbolGene ID
mus_musculusTmem100ENSMUSG00000069763
rattus_norvegicusTmem100ENSRNOG00000002434

Paralogs (1): PIRT (ENSG00000233670)

Protein

Protein identifiers

Transmembrane protein 100Q9NV29 (reviewed: Q9NV29)

All UniProt accessions (2): A0A0A0MTR3, Q9NV29

UniProt curated annotations — full annotation on UniProt →

Function. Plays a role during embryonic arterial endothelium differentiation and vascular morphogenesis through the ACVRL1 receptor-dependent signaling pathway upon stimulation by bone morphogenetic proteins, such as GDF2/BMP9 and BMP10. Involved in the regulation of nociception, acting as a modulator of the interaction between TRPA1 and TRPV1, two molecular sensors and mediators of pain signals in dorsal root ganglia (DRG) neurons. Mechanistically, it weakens their interaction, thereby releasing the inhibition of TRPA1 by TRPV1 and increasing the single-channel open probability of the TRPA1-TRPV1 complex.

Subunit / interactions. Interacts (via C-terminus) with TRPA1 and TRPV1. Interacts with TASOR.

Subcellular location. Cell membrane. Membrane. Perikaryon. Cytoplasm. Perinuclear region. Endoplasmic reticulum.

Tissue specificity. Expressed in neurons of the myenteric and submucosal plexuses in the gastric body, jejunum and proximal colon. Expressed in arterial endothelial cells and neurons of the central nervous system and peripheral nervous system. Expressed in umbilical artery endothelial cells (at protein level).

Induction. Up-regulated by GDF2/BMP9 and BMP10 (at protein level).

RefSeq proteins (2): NP_001093110, NP_060756* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR032536TMEM100Family

Pfam: PF16311

UniProt features (5 total): transmembrane region 2, chain 1, modified residue 1, sequence conflict 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q9NV29-F166.390.12

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): 121

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 218 (showing top): GOBP_POSITIVE_REGULATION_OF_EPITHELIAL_CELL_DIFFERENTIATION, GOBP_REGULATION_OF_VASCULOGENESIS, GOBP_EMBRYO_DEVELOPMENT_ENDING_IN_BIRTH_OR_EGG_HATCHING, GOBP_EPITHELIUM_DEVELOPMENT, GOBP_REGULATION_OF_CALCIUM_MEDIATED_SIGNALING, GOBP_POSITIVE_REGULATION_OF_ENDOTHELIAL_CELL_DIFFERENTIATION, GOBP_ENDOCARDIAL_CUSHION_DEVELOPMENT, GOBP_REGULATION_OF_ENDOTHELIAL_CELL_DIFFERENTIATION, AP4_Q6, GOBP_ENDOCARDIAL_CUSHION_MORPHOGENESIS, CAGCTG_AP4_Q5, GOBP_ENDOCARDIAL_CUSHION_FORMATION, SENESE_HDAC1_AND_HDAC2_TARGETS_DN, GOBP_REGULATION_OF_EPITHELIAL_CELL_DIFFERENTIATION, GOBP_SENSORY_PERCEPTION_OF_PAIN

GO Biological Process (15): angiogenesis (GO:0001525), vasculogenesis (GO:0001570), in utero embryonic development (GO:0001701), epithelial to mesenchymal transition involved in endocardial cushion formation (GO:0003198), Notch signaling pathway (GO:0007219), BMP signaling pathway (GO:0030509), positive regulation of endothelial cell differentiation (GO:0045603), regulation of calcium-mediated signaling (GO:0050848), positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction (GO:0051897), regulation of sensory perception of pain (GO:0051930), arterial endothelial cell differentiation (GO:0060842), cellular response to BMP stimulus (GO:0071773), positive regulation of vasculogenesis (GO:2001214), endocardial cushion development (GO:0003197), cell differentiation (GO:0030154)

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

GO Cellular Component (6): endoplasmic reticulum (GO:0005783), plasma membrane (GO:0005886), perikaryon (GO:0043204), perinuclear region of cytoplasm (GO:0048471), cytoplasm (GO:0005737), membrane (GO:0016020)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure4
blood vessel morphogenesis2
cytoplasm2
anatomical structure formation involved in morphogenesis1
cell differentiation1
chordate embryonic development1
endocardial cushion formation1
cardiac epithelial to mesenchymal transition1
cell surface receptor signaling pathway1
cellular response to BMP stimulus1
transforming growth factor beta receptor superfamily signaling pathway1
positive regulation of epithelial cell differentiation1
endothelial cell differentiation1
regulation of endothelial cell differentiation1
calcium-mediated signaling1
regulation of intracellular signal transduction1
phosphatidylinositol 3-kinase/protein kinase B signal transduction1
regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction1
positive regulation of intracellular signal transduction1
sensory perception of pain1
regulation of sensory perception1
blood vessel endothelial cell differentiation1
cellular response to growth factor stimulus1
response to BMP1
vasculogenesis1
positive regulation of cell differentiation1
regulation of vasculogenesis1
heart development1
mesenchyme development1
cellular developmental process1
binding1
endomembrane system1
intracellular membrane-bounded organelle1
membrane1
cell periphery1
neuronal cell body1
intracellular anatomical structure1

Protein interactions and networks

STRING

732 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
TMEM100FCN3O75636496
TMEM100TRPA1O75762484
TMEM100SNX15Q9NRS6438
TMEM100ACVRL1P37023432
TMEM100GDF2Q9UK05430
TMEM100LHX1P48742417
TMEM100AKAP5P24588415
TMEM100PCTPQ9UKL6410
TMEM100ANKS6Q68DC2402
TMEM100TRPV1Q8NER1402
TMEM100SIX2Q9NPC8391
TMEM100TMEM63CQ9P1W3378
TMEM100BMP10O95393370
TMEM100ANKFN1Q8N957370
TMEM100CITED1Q99966368

IntAct

101 interactions, top by confidence:

ABTypeScore
TMEM100MEOX2psi-mi:“MI:0915”(physical association)0.560
CCDC57TMEM100psi-mi:“MI:0915”(physical association)0.560
TMEM79TMEM100psi-mi:“MI:0915”(physical association)0.560
TMEM100CCDC57psi-mi:“MI:0915”(physical association)0.560
MEOX2TMEM100psi-mi:“MI:0915”(physical association)0.560
TMEM100GJA8psi-mi:“MI:0915”(physical association)0.560
TMEM100HSD17B13psi-mi:“MI:0915”(physical association)0.560
TMEM100STING1psi-mi:“MI:0915”(physical association)0.560
TMEM100LHFPL5psi-mi:“MI:0915”(physical association)0.560
STX1ATMEM100psi-mi:“MI:0915”(physical association)0.560
NUP93TMEM100psi-mi:“MI:0915”(physical association)0.560
RNF19BTMEM100psi-mi:“MI:0915”(physical association)0.560
SLC30A4TMEM100psi-mi:“MI:0915”(physical association)0.560
REEP1TMEM100psi-mi:“MI:0915”(physical association)0.560
FNDC9TMEM100psi-mi:“MI:0915”(physical association)0.560
CLDN7TMEM100psi-mi:“MI:0915”(physical association)0.560
SLC35A5TMEM100psi-mi:“MI:0915”(physical association)0.560
GPR152TMEM100psi-mi:“MI:0915”(physical association)0.560
EBPTMEM100psi-mi:“MI:0915”(physical association)0.560
FAM209ATMEM100psi-mi:“MI:0915”(physical association)0.560
IFNGR1TMEM100psi-mi:“MI:0915”(physical association)0.560

BioGRID (35): TMEM100 (Two-hybrid), TMEM79 (Two-hybrid), CCDC57 (Two-hybrid), TMEM100 (Two-hybrid), TMEM100 (Two-hybrid), TMEM100 (Two-hybrid), TMEM100 (Two-hybrid), TMEM100 (Two-hybrid), TMEM100 (Two-hybrid), TMEM100 (Two-hybrid), TMEM100 (Two-hybrid), TMEM100 (Two-hybrid), TMEM100 (Two-hybrid), TMEM100 (Two-hybrid), TMEM100 (Two-hybrid)

ESM2 similar proteins: A0A1B0GQX3, A0A1B0GRQ0, A0A1B0GV90, A0A1B0GVT2, A0A590UK83, A4QNL6, A5D7B5, A7RYM7, B0YA61, B3DHH5, C0HJJ0, D3YUK8, G1TZA0, H3BR10, O13001, O22752, O43073, O75324, P0C2S0, P0DKX4, P47111, P57054, P58550, P59648, P59649, P61807, P61808, Q12016, Q17Q87, Q3E8L0, Q3E912, Q3T0S0, Q3URE8, Q4V921, Q4WCL2, Q5RBD8, Q5XV67, Q80ZU4, Q8BT42, Q8LBX7

Diamond homologs: Q2KIC8, Q569C0, Q9CQG9, Q9NV29

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance19
Likely benign2
Benign0

Top pathogenic / likely-pathogenic (0)

SpliceAI

458 predictions. Top by Δscore:

VariantEffectΔscore
17:55722612:CA:Cdonor_gain1.0000
17:55722612:CACT:Cdonor_gain1.0000
17:55721136:C:CCacceptor_gain0.9900
17:55721734:A:ACdonor_gain0.9900
17:55721735:C:CCdonor_gain0.9900
17:55722615:TCACC:Tdonor_loss0.9900
17:55722616:C:CGdonor_loss0.9900
17:55721133:AAGC:Aacceptor_loss0.9800
17:55721134:AGC:Aacceptor_loss0.9800
17:55721136:C:Aacceptor_loss0.9800
17:55721731:CCCA:Cdonor_gain0.9800
17:55721131:GAAAG:Gacceptor_gain0.9700
17:55722611:ACACT:Adonor_gain0.9700
17:55722612:CACTC:Cdonor_gain0.9700
17:55722618:CCT:Cdonor_gain0.9700
17:55721133:AAG:Aacceptor_gain0.9600
17:55721134:AG:Aacceptor_gain0.9600
17:55722637:A:ACdonor_gain0.9600
17:55722655:TG:Tdonor_gain0.9600
17:55722793:A:ACdonor_gain0.9600
17:55722794:C:CCdonor_gain0.9600
17:55722611:A:ACdonor_gain0.9500
17:55722612:C:CCdonor_gain0.9500
17:55721816:CTG:Cacceptor_gain0.9400
17:55722617:A:ACdonor_gain0.9400
17:55722618:C:CCdonor_gain0.9400
17:55721132:AAAG:Aacceptor_gain0.9300
17:55722635:CCA:Cdonor_gain0.9300
17:55722636:CA:Cdonor_gain0.9300
17:55722643:A:Tdonor_gain0.9300

AlphaMissense

868 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
17:55720869:C:GG68R0.990
17:55720762:A:CS103R0.988
17:55720762:A:TS103R0.988
17:55720764:T:GS103R0.988
17:55720805:C:TG89D0.987
17:55720868:C:TG68D0.986
17:55720806:C:GG89R0.983
17:55720905:A:GC56R0.980
17:55720785:C:GG96R0.978
17:55720785:C:TG96R0.978
17:55720784:C:TG96E0.971
17:55720895:G:CP59R0.971
17:55720914:A:GC53R0.970
17:55720847:G:TA75D0.969
17:55720895:G:TP59H0.960
17:55720946:A:GL42S0.956
17:55720931:C:AG47V0.955
17:55720932:C:AG47W0.955
17:55720859:A:TV71D0.953
17:55720891:A:CF60L0.951
17:55720891:A:TF60L0.951
17:55720893:A:GF60L0.951
17:55720931:C:TG47E0.951
17:55720904:C:GC56S0.950
17:55720905:A:TC56S0.950
17:55720883:A:TV63D0.949
17:55720868:C:AG68V0.947
17:55720869:C:AG68C0.946
17:55720848:C:GA75P0.944
17:55720903:G:CC56W0.944

dbSNP variants (sampled 300 via entrez): RS1001051487 (17:55728160 G>T), RS1001216398 (17:55728552 A>T), RS1001393538 (17:55729726 T>A), RS1002301900 (17:55723071 A>G), RS1002352607 (17:55722694 C>G,T), RS1002898080 (17:55720342 T>C), RS1002913709 (17:55726790 T>C), RS1002929151 (17:55720760 G>A), RS1003076676 (17:55725618 C>T), RS1003265884 (17:55719165 C>T), RS1003306731 (17:55724564 A>C,G), RS1003457666 (17:55724004 C>T), RS1003519447 (17:55730128 G>A), RS1003533618 (17:55725391 A>G), RS1003809170 (17:55725431 A>G)

Disease associations

OMIM: gene MIM:616334 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

5 associations (top):

StudyTraitp-value
GCST001290_3Height6.000000e-09
GCST003628_7Clozapine-induced agranulocytosis/granulocytopenia in treatment-resistant schizophrenia5.000000e-06
GCST007272_33Pulse pressure1.000000e-26
GCST90020025_1458Waist-to-hip ratio adjusted for BMI3.000000e-09
GCST90020027_433Waist-hip index1.000000e-09

EFO canonical traits (2, from GWAS)

EFO IDTrait name
EFO:0005763pulse pressure measurement
EFO:0007788BMI-adjusted waist-hip ratio

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects cotreatment, increases expression, affects expression7
Thapsigargindecreases expression, increases expression2
methylmercuric chloridedecreases expression1
methyleugenoldecreases expression1
bisphenol Aaffects cotreatment, decreases methylation1
2-methyl-4-isothiazolin-3-oneincreases expression1
trichostatin Aincreases expression1
arseniteaffects expression1
boron nitridedecreases expression1
beta-methylcholineaffects expression1
CGP 52608affects binding, increases reaction1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, increases expression1
dorsomorphinaffects cotreatment, increases expression1
(+)-JQ1 compounddecreases expression1
Temozolomidedecreases expression1
Fulvestrantaffects cotreatment, decreases methylation1
Vorinostatincreases expression1
Benzo(a)pyreneincreases methylation, affects methylation1
Boron Compoundsdecreases expression1
Calcitriolincreases expression, affects cotreatment1
Dihydrotestosteroneincreases expression1
Testosteroneaffects cotreatment, increases expression1
Tetrachlorodibenzodioxinaffects expression1
Tretinoindecreases expression1
Triclosanincreases expression1
Tunicamycindecreases expression1
Cyclosporineincreases expression1
Aflatoxin B1decreases expression1
Tungsten Compoundsdecreases expression1
Okadaic Aciddecreases 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.