TMEM225B

Summary

TMEM225B (transmembrane protein 225B, HGNC:53075) is a protein-coding gene on chromosome 7q22.1, encoding Transmembrane protein 225B (P0DP42).

Predicted to be located in membrane.

Source: NCBI Gene 100289187 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 1 total
• MANE Select transcript: NM_001195541

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:53075
Approved symbol	TMEM225B
Name	transmembrane protein 225B
Location	7q22.1
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000244219
Ensembl biotype	protein_coding
Entrez	100289187

Gene structure

Transcript identifiers

Ensembl transcripts: 9 — 8 protein_coding, 1 protein_coding_CDS_not_defined

ENST00000429679, ENST00000431679, ENST00000453227, ENST00000877211, ENST00000877212, ENST00000877213, ENST00000877214, ENST00000877215, ENST00000961685

RefSeq mRNA: 3 — MANE Select: NM_001195541 NM_001195541, NM_001195542, NM_001195543

CCDS: CCDS87525

Canonical transcript exons

ENST00000431679 — 6 exons

Exon	Start	End
ENSE00001743627	99598267	99598381
ENSE00001754414	99610393	99611045
ENSE00003509461	99607673	99607810
ENSE00003521527	99600205	99600285
ENSE00003621830	99606748	99606894
ENSE00003807385	99604386	99604596

Expression profiles

Bgee: expression breadth ubiquitous, 164 present calls, max score 98.01.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.3419 / max 283.7325, expressed in 7 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter ID	TPM avg	Samples expressed
79893	0.2755	6
79894	0.0439	4
79891	0.0116	3
79892	0.0110	3

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
left testis	UBERON:0004533	98.01	gold quality
adult organism	UBERON:0007023	97.75	gold quality
right testis	UBERON:0004534	97.68	gold quality
sperm	CL:0000019	95.94	gold quality
testis	UBERON:0000473	95.89	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	94.38	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	89.51	gold quality
amniotic fluid	UBERON:0000173	76.79	gold quality
mucosa of stomach	UBERON:0001199	73.38	gold quality
skin of leg	UBERON:0001511	73.02	gold quality
upper arm skin	UBERON:0004263	72.75	gold quality
stromal cell of endometrium	CL:0002255	71.81	gold quality
tibial nerve	UBERON:0001323	71.08	gold quality
subcutaneous adipose tissue	UBERON:0002190	71.06	gold quality
endothelial cell	CL:0000115	71.05	gold quality
zone of skin	UBERON:0000014	70.67	gold quality
skin of abdomen	UBERON:0001416	70.29	gold quality
lower esophagus mucosa	UBERON:0035834	69.93	gold quality
islet of Langerhans	UBERON:0000006	69.43	gold quality
metanephros cortex	UBERON:0010533	68.82	gold quality
adipose tissue	UBERON:0001013	68.79	gold quality
right adrenal gland cortex	UBERON:0035827	68.19	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	68.13	gold quality
adenohypophysis	UBERON:0002196	67.81	gold quality
left lobe of thyroid gland	UBERON:0001120	67.75	gold quality
left uterine tube	UBERON:0001303	67.56	gold quality
left adrenal gland	UBERON:0001234	67.50	gold quality
amygdala	UBERON:0001876	67.46	gold quality
pituitary gland	UBERON:0000007	67.38	gold quality
ectocervix	UBERON:0012249	67.36	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.18

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

23 targeting TMEM225B, 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-3185	99.99	68.12	1959
HSA-MIR-6825-5P	99.96	69.81	3431
HSA-MIR-6744-5P	99.93	66.82	748
HSA-MIR-3150A-3P	99.76	64.44	1640
HSA-MIR-6763-5P	99.76	64.68	1767
HSA-MIR-6134	99.63	65.68	1537
HSA-MIR-488-3P	99.61	68.79	1731
HSA-MIR-451B	99.55	68.28	1380
HSA-MIR-5690	99.25	67.58	1012
HSA-MIR-4717-3P	99.06	66.34	1072
HSA-MIR-6868-5P	99.06	65.69	1284
HSA-MIR-3154	98.94	66.55	1455
HSA-MIR-219A-1-3P	98.91	67.87	639
HSA-MIR-129-1-3P	98.86	68.41	779
HSA-MIR-129-2-3P	98.86	68.41	779
HSA-MIR-4635	98.74	67.63	1339
HSA-MIR-3928-5P	98.50	67.48	980
HSA-MIR-6806-3P	98.50	67.31	980
HSA-MIR-939-5P	97.10	65.80	1579
HSA-MIR-6730-3P	97.03	67.54	889
HSA-MIR-6854-5P	96.77	65.96	848
HSA-MIR-1343-5P	96.48	66.06	1506
HSA-MIR-4268	94.45	64.09	819

Cross-species orthologs

0 orthologs

Protein

Protein identifiers

Transmembrane protein 225B — P0DP42 (reviewed: P0DP42)

All UniProt accessions (1): P0DP42

UniProt curated annotations — full annotation on UniProt →

Subcellular location. Membrane.

RefSeq proteins (3): NP_001182470, NP_001182471, NP_001182472 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR033542	TM225	Family
IPR057351	TM225_dom	Domain

Pfam: PF25452

UniProt features (5 total): transmembrane region 4, chain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-P0DP42-F1	77.06	0.37

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 11 (showing top): SENGUPTA_EBNA1_ANTICORRELATED, GRABARCZYK_BCL11B_TARGETS_DN, FOXN3_TARGET_GENES, HMGA1_TARGET_GENES, MIR6825_5P, MIR6854_5P, chr7q22, ZNF320_TARGET_GENES, GSE2770_TGFB_AND_IL4_VS_IL12_TREATED_ACT_CD4_TCELL_2H_DN, GSE34156_UNTREATED_VS_6H_NOD2_AND_TLR1_TLR2_LIGAND_TREATED_MONOCYTE_UP, GSE34156_NOD2_LIGAND_VS_NOD2_AND_TLR1_TLR2_LIGAND_24H_TREATED_MONOCYTE_UP

GO Biological Process (1): negative regulation of phosphatase activity (GO:0010923)

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
regulation of phosphatase activity	1
phosphatase activity	1
negative regulation of dephosphorylation	1
negative regulation of hydrolase activity	1
binding	1
cellular anatomical structure	1

Protein interactions and networks

STRING

174 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
TMEM225B	TMEM225	Q6GV28	654
TMEM225B	KBTBD3	Q8NAB2	593
TMEM225B	TMEM255B	Q8WV15	506
TMEM225B	TMEM151A	Q8N4L1	474
TMEM225B	FSCN3	Q9NQT6	460
TMEM225B	TBC1D10B	Q4KMP7	409
TMEM225B	TMEM65	Q6PI78	408
TMEM225B	PRM3	Q9NNZ6	407
TMEM225B	TUBGCP4	Q9UGJ1	401
TMEM225B	ZNF695	Q8IW36	392
TMEM225B	EXD2	Q9NVH0	371
TMEM225B	YIPF7	Q8N8F6	370
TMEM225B	TFIP11	Q9UBB9	356
TMEM225B	IFT22	Q9H7X7	351
TMEM225B	CCDC187	A0A096LP49	347

IntAct

127 interactions, top by confidence:

A	B	Type	Score
YIF1A	TMEM225B	psi-mi:“MI:0915”(physical association)	0.560
SNX27	TMEM225B	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	PDZD7	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	MAST2	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	SNTB1	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	PDZK1	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	SNTA1	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	WHRN	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	PTPN3	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	LNX2	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	RHPN1	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	DLG3	psi-mi:“MI:0407”(direct interaction)	0.440
DLG1	TMEM225B	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	PARD3	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	SCRIB	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	HTRA1	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	MAST1	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	PATJ	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	PARD3B	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	SNTG2	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	LIN7C	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	DLG2	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	DLG4	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	PICK1	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	SYNJ2BP	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	PDZD2	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	DLG1	psi-mi:“MI:0407”(direct interaction)	0.440
TMEM225B	APBA3	psi-mi:“MI:0407”(direct interaction)	0.440

ESM2 similar proteins: A0A494BZU4, A0A7H0DND7, A0JNG0, A2T345, A4IIV4, C4QM85, E7F594, G5EDX4, O02051, O45306, P0DP42, P0DST5, P0DST6, P21061, P24763, P34362, P34363, P53053, Q09282, Q0II41, Q10907, Q11071, Q11085, Q13571, Q20249, Q297K8, Q2KHT4, Q2KJA5, Q32KQ5, Q5DC12, Q5GH77, Q5PQM0, Q5RD28, Q5REZ0, Q5TAH2, Q61168, Q6AXT9, Q6GV27, Q6GV28, Q7K1V5

SIGNOR signaling

0 interactions.

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 78 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

Pathway	Partners	Fold	FDR
Ras activation upon Ca2+ influx through NMDA receptor	5	56.0×	1e-06
Unblocking of NMDA receptors, glutamate binding and activation	5	53.3×	1e-06
Negative regulation of NMDA receptor-mediated neuronal transmission	5	53.3×	1e-06
Assembly and cell surface presentation of NMDA receptors	10	49.8×	4e-13
Dopamine Neurotransmitter Release Cycle	5	48.7×	1e-06
Long-term potentiation	5	46.6×	1e-06
Neurexins and neuroligins	11	42.5×	2e-13
Protein-protein interactions at synapses	7	36.5×	5e-08

GO biological processes:

GO term	Partners	Fold	FDR
establishment or maintenance of epithelial cell apical/basal polarity	11	85.2×	1e-16
protein localization to synapse	6	61.3×	5e-08
receptor clustering	7	58.2×	5e-09
regulation of postsynaptic membrane neurotransmitter receptor levels	7	46.3×	2e-08
protein-containing complex assembly	9	13.7×	1e-06
cell-cell adhesion	10	13.5×	2e-07
protein localization to plasma membrane	5	7.2×	8e-03
chemical synaptic transmission	7	7.2×	1e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

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

Top pathogenic / likely-pathogenic (0)

SpliceAI

951 predictions. Top by Δscore:

Variant	Effect	Δscore
7:99600286:G:GG	donor_gain	1.0000
7:99604577:G:GT	donor_gain	1.0000
7:99604597:G:GG	donor_gain	1.0000
7:99606746:A:AG	acceptor_gain	1.0000
7:99606747:G:GG	acceptor_gain	1.0000
7:99606854:G:GT	donor_gain	1.0000
7:99606906:C:G	donor_gain	1.0000
7:99598389:G:T	donor_gain	0.9900
7:99600204:GCA:G	acceptor_gain	0.9900
7:99600281:GACCT:G	donor_gain	0.9900
7:99604382:A:AG	acceptor_gain	0.9900
7:99604382:ACAG:A	acceptor_gain	0.9900
7:99604383:C:G	acceptor_gain	0.9900
7:99604383:CA:C	acceptor_loss	0.9900
7:99604384:A:AT	acceptor_loss	0.9900
7:99604384:AGGT:A	acceptor_gain	0.9900
7:99604385:GGT:G	acceptor_gain	0.9900
7:99604385:GGTG:G	acceptor_gain	0.9900
7:99604527:G:GT	donor_gain	0.9900
7:99604592:ATCCA:A	donor_gain	0.9900
7:99604593:TCCA:T	donor_gain	0.9900
7:99604594:CCA:C	donor_gain	0.9900
7:99604595:CAGTA:C	donor_loss	0.9900
7:99604596:AG:A	donor_loss	0.9900
7:99604597:GT:G	donor_loss	0.9900
7:99604598:TAA:T	donor_loss	0.9900
7:99604602:G:GT	donor_gain	0.9900
7:99604606:G:T	donor_gain	0.9900
7:99606747:GT:G	acceptor_gain	0.9900
7:99606747:GTTT:G	acceptor_gain	0.9900

AlphaMissense

1446 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
7:99606882:A:C	S115R	0.984
7:99606884:C:A	S115R	0.984
7:99606884:C:G	S115R	0.984
7:99604499:G:C	W37C	0.982
7:99604499:G:T	W37C	0.982
7:99604497:T:A	W37R	0.980
7:99604497:T:C	W37R	0.980
7:99606762:G:C	G75R	0.980
7:99604548:T:C	F54L	0.979
7:99604550:T:A	F54L	0.979
7:99604550:T:G	F54L	0.979
7:99604458:G:C	G24R	0.970
7:99604549:T:G	F54C	0.969
7:99607798:T:C	F161L	0.968
7:99607800:C:A	F161L	0.968
7:99607800:C:G	F161L	0.968
7:99606763:G:A	G75D	0.964
7:99606766:G:C	R76P	0.963
7:99607810:G:C	G165R	0.963
7:99604494:T:C	F36L	0.962
7:99604496:C:A	F36L	0.962
7:99604496:C:G	F36L	0.962
7:99604542:G:C	G52R	0.962
7:99604543:G:A	G52D	0.961
7:99604572:T:A	C62S	0.959
7:99604573:G:C	C62S	0.959
7:99607702:C:G	H129D	0.957
7:99604559:C:G	C57W	0.956
7:99607762:T:A	W149R	0.956
7:99607762:T:C	W149R	0.956

dbSNP variants (sampled 300 via entrez): RS1000203657 (7:99606520 G>A), RS1000392694 (7:99599273 C>T), RS1000495177 (7:99611405 A>G), RS1000574168 (7:99606801 G>A), RS1000690957 (7:99605426 C>T), RS1000721649 (7:99605036 A>C), RS1000951387 (7:99611161 C>G,T), RS1001354869 (7:99601247 G>A), RS1001395635 (7:99600883 G>A), RS1001596655 (7:99598654 C>G), RS1001895795 (7:99597693 T>C), RS1002222906 (7:99609938 T>C,G), RS1002299286 (7:99596208 G>A), RS1002327131 (7:99597523 TTTA>T), RS1002360903 (7:99602739 G>A,T)

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

10 total (human), top 10 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Nickel	decreases expression	2
Valproic Acid	affects cotreatment, decreases expression	2
benzo(e)pyrene	decreases methylation	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	affects cotreatment, decreases expression	1
abrine	increases expression	1
dorsomorphin	affects cotreatment, decreases expression	1
Air Pollutants	increases abundance, increases expression	1
Methapyrilene	decreases methylation	1
Okadaic Acid	decreases expression	1
Particulate Matter	increases abundance, increases expression	1

Clinical trials (associated diseases)

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