TMEM140

Summary

TMEM140 (transmembrane protein 140, HGNC:21870) is a protein-coding gene on chromosome 7q33, encoding Transmembrane protein 140 (Q9NV12).

Predicted to be located in membrane.

Source: NCBI Gene 55281 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 4 total
• MANE Select transcript: NM_018295

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:21870
Approved symbol	TMEM140
Name	transmembrane protein 140
Location	7q33
Locus type	gene with protein product
Status	Approved
Aliases	FLJ11000
Ensembl gene	ENSG00000146859
Ensembl biotype	protein_coding
Entrez	55281

Gene structure

Transcript identifiers

Ensembl transcripts: 5 — 4 protein_coding, 1 protein_coding_CDS_not_defined

ENST00000275767, ENST00000466307, ENST00000873393, ENST00000873394, ENST00000968393

RefSeq mRNA: 1 — MANE Select: NM_018295 NM_018295

CCDS: CCDS5837

Canonical transcript exons

ENST00000275767 — 2 exons

Exon	Start	End
ENSE00000977825	135164418	135166215
ENSE00001021437	135148072	135148270

Expression profiles

Bgee: expression breadth ubiquitous, 235 present calls, max score 94.97.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 18.9720 / max 1520.3016, expressed in 1214 samples.

FANTOM5 promoters (5 alternative TSS)

Promoter ID	TPM avg	Samples expressed
81344	15.7757	1157
81345	1.6266	525
81343	0.9656	441
81346	0.4288	245
81342	0.1753	73

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
blood	UBERON:0000178	94.97	gold quality
gastrocnemius	UBERON:0001388	93.84	gold quality
muscle of leg	UBERON:0001383	93.06	gold quality
hindlimb stylopod muscle	UBERON:0004252	92.95	gold quality
monocyte	CL:0000576	92.65	gold quality
leukocyte	CL:0000738	92.59	gold quality
mononuclear cell	CL:0000842	92.57	gold quality
apex of heart	UBERON:0002098	91.69	gold quality
right lobe of liver	UBERON:0001114	91.41	gold quality
gluteal muscle	UBERON:0002000	91.38	gold quality
granulocyte	CL:0000094	90.73	gold quality
muscle organ	UBERON:0001630	90.47	gold quality
skeletal muscle organ	UBERON:0014892	90.47	gold quality
subcutaneous adipose tissue	UBERON:0002190	90.03	gold quality
adipose tissue	UBERON:0001013	89.68	gold quality
omental fat pad	UBERON:0010414	89.42	gold quality
peritoneum	UBERON:0002358	89.35	gold quality
adipose tissue of abdominal region	UBERON:0007808	89.33	gold quality
right lung	UBERON:0002167	89.04	gold quality
connective tissue	UBERON:0002384	89.01	gold quality
liver	UBERON:0002107	88.81	gold quality
upper lobe of left lung	UBERON:0008952	88.71	gold quality
upper lobe of lung	UBERON:0008948	88.08	gold quality
gall bladder	UBERON:0002110	87.96	gold quality
spleen	UBERON:0002106	87.31	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	87.26	gold quality
heart left ventricle	UBERON:0002084	87.08	gold quality
descending thoracic aorta	UBERON:0002345	86.87	gold quality
cardiac ventricle	UBERON:0002082	86.72	gold quality
right adrenal gland	UBERON:0001233	86.56	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-MTAB-7037	yes	138.06
E-MTAB-8142	yes	18.65
E-ANND-3	yes	7.27

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

49 targeting TMEM140, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNA	Max score	Avg score	miRNA target_count
HSA-MIR-8485	100.00	77.57	4731
HSA-MIR-3662	99.99	73.82	5684
HSA-MIR-23B-5P	99.98	66.07	587
HSA-MIR-4487	99.96	64.58	1252
HSA-MIR-96-5P	99.95	72.80	2140
HSA-MIR-23A-5P	99.94	65.39	468
HSA-MIR-6845-3P	99.94	66.88	1439
HSA-MIR-12133	99.92	71.82	2006
HSA-MIR-1271-5P	99.91	71.99	1972
HSA-MIR-182-5P	99.87	74.03	2589
HSA-MIR-5004-5P	99.68	66.63	1294
HSA-MIR-4663	99.62	65.33	957
HSA-MIR-6861-3P	99.60	68.46	444
HSA-MIR-6165	99.44	67.12	1389
HSA-MIR-148A-5P	99.30	68.27	1141
HSA-MIR-548V	99.29	69.47	1157
HSA-MIR-323B-3P	99.14	68.89	725
HSA-MIR-4504	99.10	69.14	1328
HSA-MIR-3124-3P	98.87	68.95	2123
HSA-MIR-4656	98.79	66.22	1306
HSA-MIR-1537-5P	98.70	68.33	999
HSA-MIR-7155-5P	98.65	66.14	1290
HSA-MIR-6830-3P	98.62	68.07	1760
HSA-MIR-3135B	98.61	65.33	1470
HSA-MIR-4463	98.56	66.05	1071
HSA-MIR-6827-5P	98.46	64.88	1256
HSA-MIR-302F	98.44	69.02	1776
HSA-MIR-6838-3P	98.40	65.88	559
HSA-MIR-3680-5P	98.06	66.20	394
HSA-MIR-744-3P	97.99	67.76	637

Literature-anchored findings (GeneRIF, showing 1)

• Binding of viral UL31 to host TMEM140 impedes formation of HSV-1 UL31-UL34 complex. (PMID:25036476)

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Tmem140	ENSMUSG00000057137
rattus_norvegicus	Tmem140	ENSRNOG00000026965

Protein

Protein identifiers

Transmembrane protein 140 — Q9NV12 (reviewed: Q9NV12)

All UniProt accessions (1): Q9NV12

UniProt curated annotations — full annotation on UniProt →

Subcellular location. Membrane.

Tissue specificity. Expression significantly higher in gliomas than in normal brain tissues.

RefSeq proteins (1): NP_060765* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR028038	TM140	Family

Pfam: PF14985

UniProt features (16 total): topological domain 5, sequence variant 5, transmembrane region 4, chain 1, glycosylation site 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q9NV12-F1	86.83	0.56

Functional residue map

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

Glycosylation sites (1): 38

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 206 (showing top): GOZGIT_ESR1_TARGETS_DN, GRAESSMANN_APOPTOSIS_BY_SERUM_DEPRIVATION_UP, GRAESSMANN_RESPONSE_TO_MC_AND_SERUM_DEPRIVATION_UP, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_UP, INGRAM_SHH_TARGETS_UP, SABATES_COLORECTAL_ADENOMA_DN, PODAR_RESPONSE_TO_ADAPHOSTIN_UP, GAL_LEUKEMIC_STEM_CELL_UP, MARSON_BOUND_BY_FOXP3_UNSTIMULATED, BOCHKIS_FOXA2_TARGETS, BILBAN_B_CLL_LPL_UP, MARTENS_TRETINOIN_RESPONSE_DN, LEE_BMP2_TARGETS_UP, FEVR_CTNNB1_TARGETS_UP, WAKABAYASHI_ADIPOGENESIS_PPARG_RXRA_BOUND_8D

GO Biological Process (0):

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

GO Cellular Component (1): membrane (GO:0016020)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
binding	1
cellular anatomical structure	1

Protein interactions and networks

STRING

562 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
TMEM140	MVB12A	Q96EY5	516
TMEM140	TMEM168	Q9H0V1	454
TMEM140	SH3RF3	Q8TEJ3	446
TMEM140	CNIH4	Q9P003	437
TMEM140	KCNK7	Q9Y2U2	404
TMEM140	TPRN	Q4KMQ1	392
TMEM140	ZMYND19	Q96E35	388
TMEM140	BST2	Q10589	384
TMEM140	C2CD4D	B7Z1M9	369
TMEM140	TMIGD1	Q6UXZ0	369
TMEM140	MT2A	P02795	365
TMEM140	CCDC28A	Q8IWP9	357
TMEM140	ANKRD33B	A6NCL7	353
TMEM140	TMEM45B	Q96B21	351
TMEM140	SLC35G3	Q8N808	350

IntAct

151 interactions, top by confidence:

A	B	Type	Score
SYNE4	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
TMEM140	SYNE4	psi-mi:“MI:0915”(physical association)	0.560
TMEM140	HSD17B13	psi-mi:“MI:0915”(physical association)	0.560
TMEM140	IFNGR2	psi-mi:“MI:0915”(physical association)	0.560
TMEM140	TEX29	psi-mi:“MI:0915”(physical association)	0.560
TMEM140	SPACA1	psi-mi:“MI:0915”(physical association)	0.560
TMEM140		psi-mi:“MI:0915”(physical association)	0.560
TMEM140	CGRRF1	psi-mi:“MI:0915”(physical association)	0.560
MFF	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
CLEC17A	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
KRTAP10-8	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
STOM	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
ASGR2	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
MS4A3	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
CD79A	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
FAM210B	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
CLDN5	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
TMEM182	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
CLDN7	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
TMEM205	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
APH1A	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
HSD17B13	TMEM140	psi-mi:“MI:0915”(physical association)	0.560
TSPO2	TMEM140	psi-mi:“MI:0915”(physical association)	0.560

BioGRID (58): SYNE4 (Two-hybrid), TMEM140 (Two-hybrid), TMEM140 (Two-hybrid), TMEM140 (Affinity Capture-RNA), TMEM140 (Two-hybrid), TMEM140 (Two-hybrid), TMEM140 (Two-hybrid), TMEM140 (Two-hybrid), TMEM140 (Two-hybrid), TMEM140 (Two-hybrid), TMEM140 (Two-hybrid), TMEM140 (Two-hybrid), TMEM140 (Two-hybrid), TMEM140 (Two-hybrid), TMEM140 (Two-hybrid)

ESM2 similar proteins: A1A4P6, A1A5B4, A5PK40, A6NDV4, A6NFX1, A6NGC4, A6QL84, A6QLK4, B1AWJ5, B6ID01, E1BY51, P58749, Q2TA01, Q2YDG0, Q32PG7, Q3T9M1, Q4R7X9, Q5HZE5, Q5JZQ7, Q5R6H1, Q5RBY7, Q60HE8, Q6AY05, Q6AYM9, Q6PHN7, Q6TCG5, Q6UX01, Q6UXD7, Q7RTT9, Q7Z403, Q80ZE4, Q8CE47, Q8R139, Q8TBR7, Q96FZ5, Q96HE8, Q96S97, Q9BSA9, Q9BZW5, Q9CQC4

Diamond homologs: Q5M826, Q8BGY5, Q9NV12

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	3
Likely benign	1
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

195 predictions. Top by Δscore:

Variant	Effect	Δscore
7:135148194:G:GT	donor_gain	0.9900
7:135148271:G:GG	donor_gain	0.9900
7:135164413:CGCA:C	acceptor_loss	0.9900
7:135164414:GCAG:G	acceptor_loss	0.9900
7:135164415:CA:C	acceptor_loss	0.9900
7:135164417:G:GA	acceptor_loss	0.9900
7:135164416:A:AG	acceptor_gain	0.9800
7:135164417:G:GG	acceptor_gain	0.9800
7:135148267:TTCT:T	donor_gain	0.9700
7:135148269:CTG:C	donor_loss	0.9700
7:135148270:TGTA:T	donor_loss	0.9700
7:135148271:G:T	donor_loss	0.9700
7:135148272:TAAGT:T	donor_loss	0.9700
7:135148273:AAGTA:A	donor_loss	0.9700
7:135148275:G:A	donor_loss	0.9700
7:135148266:TTTCT:T	donor_gain	0.9600
7:135148269:CT:C	donor_gain	0.9600
7:135164417:GGTC:G	acceptor_gain	0.9600
7:135148268:TCT:T	donor_gain	0.9500
7:135164417:GGT:G	acceptor_gain	0.9500
7:135148322:G:GG	donor_gain	0.9300
7:135164413:C:CA	acceptor_gain	0.9200
7:135164417:GGTCC:G	acceptor_gain	0.9200
7:135164416:AG:A	acceptor_gain	0.9100
7:135164417:GG:G	acceptor_gain	0.9100
7:135151521:CCCAG:C	acceptor_gain	0.8600
7:135151522:CCAG:C	acceptor_gain	0.8400
7:135151520:TCCCA:T	acceptor_gain	0.8300
7:135151523:CAGT:C	acceptor_gain	0.8300
7:135164652:G:GT	donor_gain	0.8200

AlphaMissense

1179 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
7:135164586:T:C	F49L	0.981
7:135164588:C:A	F49L	0.981
7:135164588:C:G	F49L	0.981
7:135164587:T:G	F49C	0.952
7:135164587:T:C	F49S	0.948
7:135164606:G:C	W55C	0.948
7:135164606:G:T	W55C	0.948
7:135164727:T:C	F96L	0.935
7:135164729:T:A	F96L	0.935
7:135164729:T:G	F96L	0.935
7:135164551:G:T	G37V	0.929
7:135164689:C:A	A83D	0.922
7:135164583:G:C	G48R	0.920
7:135164598:T:C	C53R	0.917
7:135164598:T:A	C53S	0.915
7:135164599:G:C	C53S	0.915
7:135164631:T:A	C64S	0.915
7:135164632:G:C	C64S	0.915
7:135164706:G:A	G89R	0.909
7:135164706:G:C	G89R	0.909
7:135164599:G:A	C53Y	0.905
7:135164517:T:C	C26R	0.903
7:135164600:C:G	C53W	0.903
7:135164707:G:A	G89E	0.903
7:135164596:T:C	F52S	0.902
7:135164697:G:C	G86R	0.900
7:135164584:G:A	G48D	0.899
7:135164550:G:T	G37C	0.886
7:135164584:G:T	G48V	0.886
7:135164829:G:C	G130R	0.885

dbSNP variants (sampled 300 via entrez): RS1000003403 (7:135162789 T>C), RS1000057053 (7:135156203 T>G), RS1000219302 (7:135156848 G>A), RS1000253092 (7:135153379 GGGAGGC>G), RS1000471687 (7:135146082 A>G), RS1000510741 (7:135156513 T>A,C), RS1000523240 (7:135163075 G>A), RS1000537658 (7:135151318 A>C), RS1000634819 (7:135165818 T>C), RS1000714002 (7:135160186 C>T), RS1000740115 (7:135159904 G>C), RS1001567229 (7:135156004 T>C), RS1001594965 (7:135159654 G>A), RS1001682007 (7:135156410 T>G), RS1001820223 (7:135152610 A>C)

Disease associations

OMIM: gene `` | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

0 associations (top):

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

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

Chemical	Actions (top 5)	PubMed papers
Benzo(a)pyrene	affects methylation, decreases methylation, increases expression	4
bisphenol A	increases expression, affects cotreatment	3
Tetrachlorodibenzodioxin	increases expression	2
Cyclosporine	decreases expression, increases expression	2
aristolochic acid I	increases expression	1
dicrotophos	decreases expression	1
pirinixic acid	increases expression, affects binding, increases activity	1
arsenite	decreases methylation	1
tris(1,3-dichloro-2-propyl)phosphate	increases expression	1
sodium arsenite	decreases expression	1
cobaltous chloride	decreases expression	1
S-(1,2-dichlorovinyl)cysteine	affects response to substance, increases expression	1
incobotulinumtoxinA	increases expression	1
Acetaminophen	increases expression	1
Air Pollutants	decreases expression	1
Amphotericin B	decreases expression	1
Azathioprine	increases expression	1
Dexamethasone	affects cotreatment, increases expression	1
Diethylhexyl Phthalate	increases expression	1
Diuron	decreases expression	1
Estradiol	decreases expression	1
Hydrogen Peroxide	decreases expression	1
Indomethacin	affects cotreatment, increases expression	1
Lipopolysaccharides	increases expression, affects response to substance	1
Polychlorinated Biphenyls	affects expression	1
Quercetin	increases expression	1
Tretinoin	increases expression	1
Urethane	affects expression	1
Valproic Acid	decreases methylation	1
1-Methyl-3-isobutylxanthine	affects cotreatment, increases expression	1

Cellosaurus cell lines

2 cell lines: 2 cancer cell line

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

Cellosaurus	Name	Category	Sex
CVCL_B1I4	Abcam A-549 TMEM140 KO 1	Cancer cell line	Male
CVCL_B2QN	Abcam A-549 TMEM140 KO 2	Cancer cell line	Male

Clinical trials (associated diseases)

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