TPRG1

Summary

TPRG1 (tumor protein p63 regulated 1, HGNC:24759) is a protein-coding gene on chromosome 3q28, encoding Tumor protein p63-regulated gene 1 protein (Q6ZUI0).

Predicted to be active in cytoplasm.

Source: NCBI Gene 285386 — RefSeq curated summary.

At a glance

• GWAS associations: 7
• Clinical variants (ClinVar): 43 total
• MANE Select transcript: NM_198485

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:24759
Approved symbol	TPRG1
Name	tumor protein p63 regulated 1
Location	3q28
Locus type	gene with protein product
Status	Approved
Aliases	FLJ41238, FLJ43694
Ensembl gene	ENSG00000188001
Ensembl biotype	protein_coding
Entrez	285386

Gene structure

Transcript identifiers

Ensembl transcripts: 34 — 24 protein_coding, 10 protein_coding_CDS_not_defined

ENST00000345063, ENST00000412373, ENST00000425670, ENST00000433971, ENST00000456832, ENST00000460613, ENST00000464152, ENST00000473790, ENST00000479720, ENST00000481307, ENST00000485836, ENST00000488841, ENST00000493725, ENST00000496671, ENST00000497628, ENST00000867713, ENST00000867714, ENST00000867715, ENST00000867716, ENST00000867717, ENST00000867718, ENST00000867719, ENST00000867720, ENST00000867721, ENST00000867722, ENST00000867723, ENST00000867724, ENST00000949786, ENST00000949787, ENST00000949788, ENST00000949789, ENST00000949790, ENST00000949791, ENST00000949792

RefSeq mRNA: 1 — MANE Select: NM_198485 NM_198485

CCDS: CCDS3292

Canonical transcript exons

ENST00000345063 — 6 exons

Exon	Start	End
ENSE00001372486	189238733	189238909
ENSE00001389174	189320626	189325304
ENSE00001427712	189171971	189172131
ENSE00003593052	189310386	189310539
ENSE00003630174	189207376	189207594
ENSE00003789158	189215292	189215383

Expression profiles

Bgee: expression breadth ubiquitous, 208 present calls, max score 98.48.

FANTOM5 (CAGE): breadth broad, TPM avg 3.2370 / max 228.5142, expressed in 487 samples.

FANTOM5 promoters (20 alternative TSS)

Promoter ID	TPM avg	Samples expressed
40509	0.6606	38
40513	0.5393	83
40498	0.2703	61
40481	0.2516	131
40482	0.1733	96
40511	0.1667	51
40500	0.1561	29
40501	0.1442	34
40497	0.1394	55
40480	0.1030	54

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
calcaneal tendon	UBERON:0003701	98.48	gold quality
lower esophagus mucosa	UBERON:0035834	97.83	gold quality
esophagus squamous epithelium	UBERON:0006920	96.59	gold quality
pharyngeal mucosa	UBERON:0000355	95.19	gold quality
oral cavity	UBERON:0000167	94.93	gold quality
upper leg skin	UBERON:0004262	94.73	gold quality
esophagus mucosa	UBERON:0002469	93.97	gold quality
skin of leg	UBERON:0001511	93.33	gold quality
penis	UBERON:0000989	92.37	gold quality
zone of skin	UBERON:0000014	92.27	gold quality
skin of abdomen	UBERON:0001416	92.20	gold quality
upper arm skin	UBERON:0004263	91.85	gold quality
mammalian vulva	UBERON:0000997	91.52	gold quality
vagina	UBERON:0000996	91.08	gold quality
amniotic fluid	UBERON:0000173	90.88	gold quality
ectocervix	UBERON:0012249	89.71	gold quality
subcutaneous adipose tissue	UBERON:0002190	89.09	gold quality
right lobe of liver	UBERON:0001114	88.68	gold quality
gingiva	UBERON:0001828	88.39	gold quality
buccal mucosa cell	CL:0002336	88.32	gold quality
tendon	UBERON:0000043	86.89	gold quality
right uterine tube	UBERON:0001302	86.85	gold quality
uterine cervix	UBERON:0000002	86.80	gold quality
gingival epithelium	UBERON:0001949	86.56	gold quality
skin of hip	UBERON:0001554	86.10	gold quality
adipose tissue	UBERON:0001013	85.14	gold quality
body of tongue	UBERON:0011876	84.93	gold quality
granulocyte	CL:0000094	84.81	gold quality
endocervix	UBERON:0000458	84.60	gold quality
right lung	UBERON:0002167	84.12	gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	yes	10.22
E-MTAB-7249	no	84.33

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): TP63

miRNA regulators (miRDB)

99 targeting TPRG1, 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-4776-3P	100.00	68.73	1340
HSA-MIR-5011-5P	100.00	83.46	5820
HSA-MIR-3613-3P	100.00	76.36	7965
HSA-MIR-1277-5P	100.00	73.95	5056
HSA-MIR-3065-5P	99.97	71.56	3281
HSA-MIR-3658	99.96	73.87	4379
HSA-MIR-651-3P	99.94	73.48	5177
HSA-MIR-515-5P	99.92	69.82	2343
HSA-MIR-519E-5P	99.92	69.62	2358
HSA-MIR-10527-5P	99.91	72.28	3754
HSA-MIR-1305	99.91	71.43	3443
HSA-MIR-374A-5P	99.90	71.34	2923
HSA-MIR-374B-5P	99.90	69.98	2734
HSA-MIR-1343-3P	99.89	66.78	1815
HSA-MIR-6783-3P	99.89	67.92	2059
HSA-MIR-1323	99.83	69.89	2471
HSA-MIR-6739-5P	99.80	67.87	2806
HSA-MIR-577	99.78	69.13	2479
HSA-MIR-548AJ-5P	99.78	71.12	3085
HSA-MIR-548F-5P	99.78	71.02	3093
HSA-MIR-548G-5P	99.78	71.12	3085
HSA-MIR-548X-5P	99.78	71.12	3085
HSA-MIR-4766-5P	99.75	69.23	2662
HSA-MIR-548O-3P	99.74	69.30	2228
HSA-MIR-6733-5P	99.74	67.94	2759
HSA-MIR-6505-5P	99.73	69.25	1595
HSA-MIR-8084	99.73	69.57	1760
HSA-MIR-132-3P	99.73	70.56	1424
HSA-MIR-212-3P	99.73	70.65	1424
HSA-MIR-1200	99.71	70.42	1838

Literature-anchored findings (GeneRIF, showing 1)

• Tumor protein P63 Regulated 1 contributes to inflammation and cell proliferation of cystitis glandularis through regulating the NF-small ka, CyrillicB/cyclooxygenase-2/prostaglandin E2 axis. (PMID:34998360)

Cross-species orthologs

3 orthologs

Organism	Symbol	Gene ID
danio_rerio	tprg1	ENSDARG00000056026
mus_musculus	Tprg1	ENSMUSG00000048399
rattus_norvegicus	Tprg1	ENSRNOG00000063970

Paralogs (1): TPRG1L (ENSG00000158109)

Protein

Protein identifiers

Tumor protein p63-regulated gene 1 protein — Q6ZUI0 (reviewed: Q6ZUI0)

Alternative names: Protein FAM79B

All UniProt accessions (4): Q6ZUI0, C9IYC1, C9JDW1, H7C1G4

UniProt curated annotations — full annotation on UniProt →

Subcellular location. Cytoplasm.

Tissue specificity. Expressed in the epidermal layer of the skin.

Similarity. Belongs to the TPRG1 family.

RefSeq proteins (1): NP_940887* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR022158	Inositol_phosphatase	Domain
IPR034753	hSac2	Domain
IPR040242	TPRG1-like	Family

Pfam: PF12456

UniProt features (4 total): chain 1, domain 1, region of interest 1, compositionally biased region 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q6ZUI0-F1	73.90	0.34

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 71 (showing top): LEE_SP4_THYMOCYTE, TGACATY_UNKNOWN, MAF_Q6, CHIANG_LIVER_CANCER_SUBCLASS_CTNNB1_UP, CHIANG_LIVER_CANCER_SUBCLASS_PROLIFERATION_DN, VECCHI_GASTRIC_CANCER_ADVANCED_VS_EARLY_UP, LEE_RECENT_THYMIC_EMIGRANT, ZWANG_TRANSIENTLY_UP_BY_2ND_EGF_PULSE_ONLY, ARID5B_TARGET_GENES, GREB1_TARGET_GENES, LHX9_TARGET_GENES, NFKBIA_TARGET_GENES, PBXIP1_TARGET_GENES, ZNF92_TARGET_GENES, MIR3658

GO Biological Process (0):

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

GO Cellular Component (1): cytoplasm (GO:0005737)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
binding	1
intracellular anatomical structure	1
cellular anatomical structure	1

Protein interactions and networks

STRING

560 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
TPRG1	TP63	Q9H3D4	490
TPRG1	CFAP95	Q5VTT2	403
TPRG1	ABHD14A	Q9BUJ0	371
TPRG1	SACK1C	Q9BQN1	371
TPRG1	SUSD1	Q6UWL2	366
TPRG1	S100PBP	Q96BU1	354
TPRG1	WDR6	Q9NNW5	348
TPRG1	CBFA2T3	O75081	347
TPRG1	EVA1C	P58658	347
TPRG1	CCDC18	Q5T9S5	344
TPRG1	FOXRED2	Q8IWF2	315
TPRG1	C1orf162	Q8NEQ5	312
TPRG1	TULP2	O00295	309
TPRG1	PIP4K2A	P48426	306
TPRG1	MEF2B	Q02080	296

IntAct

58 interactions, top by confidence:

A	B	Type	Score
TPRG1	HSD17B13	psi-mi:“MI:0915”(physical association)	0.560
TPRG1	APOC4	psi-mi:“MI:0915”(physical association)	0.560
TPRG1	TMX2	psi-mi:“MI:0915”(physical association)	0.560
TPRG1	RETREG3	psi-mi:“MI:0915”(physical association)	0.560
MFSD14B	TPRG1	psi-mi:“MI:0915”(physical association)	0.560
APOC4	TPRG1	psi-mi:“MI:0915”(physical association)	0.560
TPRG1	SLC35C2	psi-mi:“MI:0915”(physical association)	0.560
APOC1	TPRG1	psi-mi:“MI:0915”(physical association)	0.560
RHBDD2	TPRG1	psi-mi:“MI:0915”(physical association)	0.560
TPRG1	SCN3B	psi-mi:“MI:0915”(physical association)	0.560
TPRG1	HSD17B11	psi-mi:“MI:0915”(physical association)	0.560
TPRG1	REEP4	psi-mi:“MI:0915”(physical association)	0.560
EBAG9	TPRG1	psi-mi:“MI:0915”(physical association)	0.560
TPRG1	CIDEB	psi-mi:“MI:0915”(physical association)	0.560
TPRG1	CGRRF1	psi-mi:“MI:0915”(physical association)	0.560
TPRG1	TMEM120A	psi-mi:“MI:0915”(physical association)	0.560
SLC10A6	TPRG1	psi-mi:“MI:0915”(physical association)	0.560
AQP6	TPRG1	psi-mi:“MI:0915”(physical association)	0.560
	TPRG1	psi-mi:“MI:0915”(physical association)	0.560
STX17	A2ML1	psi-mi:“MI:0914”(association)	0.350
OR2A4	A2ML1	psi-mi:“MI:0914”(association)	0.350
CCR1	UBA6	psi-mi:“MI:0914”(association)	0.350
TPRG1	RHBDD2	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (23): TPRG1 (Two-hybrid), TPRG1 (Two-hybrid), TPRG1 (Two-hybrid), TPRG1 (Two-hybrid), TPRG1 (Two-hybrid), TPRG1 (Two-hybrid), TPRG1 (Two-hybrid), TPRG1 (Two-hybrid), TPRG1 (Two-hybrid), TPRG1 (Two-hybrid), TPRG1 (Two-hybrid), TPRG1 (Two-hybrid), TPRG1 (Two-hybrid), TPRG1 (Two-hybrid), TMEM120A (Two-hybrid)

ESM2 similar proteins: A0A1B7XV12, A0A571BF63, A0A5F8MPE6, A0JMA8, A3KQ58, A6NEN9, A6QNM3, A8E7C5, A8PJX4, B0W730, O00443, O00522, O59800, P70371, Q08AE8, Q0VA04, Q0VA42, Q14D04, Q16YA8, Q32LJ3, Q3V2K1, Q4R707, Q52KF3, Q5F3E8, Q5PQS3, Q5RAY1, Q5UQM6, Q5XIR8, Q61QK6, Q63ZP1, Q6C4Q6, Q6DTM3, Q6ING4, Q6NSI8, Q6S5J6, Q6TNJ1, Q6ZUI0, Q7Z3E5, Q7ZXG4, Q86VD1

Diamond homologs: A8WCF8, Q32LJ4, Q5T0D9, Q6ZUI0, Q8CB49, Q9DBS2

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	37
Likely benign	1
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

4816 predictions. Top by Δscore:

Variant	Effect	Δscore
3:189207576:G:GT	donor_gain	1.0000
3:189215384:G:GG	donor_gain	1.0000
3:189238728:TATA:T	acceptor_loss	1.0000
3:189238730:TAGGA:T	acceptor_loss	1.0000
3:189238731:A:AG	acceptor_gain	1.0000
3:189238731:AG:A	acceptor_gain	1.0000
3:189238731:AGGAT:A	acceptor_loss	1.0000
3:189238732:G:GC	acceptor_loss	1.0000
3:189238732:G:GG	acceptor_gain	1.0000
3:189238732:GG:G	acceptor_gain	1.0000
3:189238732:GGATA:G	acceptor_gain	1.0000
3:189238905:GACAA:G	donor_gain	1.0000
3:189238909:AGT:A	donor_loss	1.0000
3:189238910:G:GG	donor_gain	1.0000
3:189238910:GTG:G	donor_loss	1.0000
3:189238911:TGA:T	donor_loss	1.0000
3:189238912:GAG:G	donor_loss	1.0000
3:189277108:G:GT	donor_gain	1.0000
3:189320622:TCAGT:T	acceptor_loss	1.0000
3:189320624:A:AG	acceptor_gain	1.0000
3:189320624:AGTT:A	acceptor_gain	1.0000
3:189320625:G:GG	acceptor_gain	1.0000
3:189320625:GT:G	acceptor_gain	1.0000
3:189320625:GTT:G	acceptor_gain	1.0000
3:189320625:GTTG:G	acceptor_gain	1.0000
3:189320625:GTTGT:G	acceptor_gain	1.0000
3:189123567:A:AG	acceptor_gain	0.9900
3:189123568:A:G	acceptor_gain	0.9900
3:189123570:A:AG	acceptor_gain	0.9900
3:189123571:A:G	acceptor_gain	0.9900

AlphaMissense

1796 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
3:189310450:T:A	W182R	0.987
3:189310450:T:C	W182R	0.987
3:189320815:T:C	F275L	0.987
3:189320817:T:A	F275L	0.987
3:189320817:T:G	F275L	0.987
3:189238743:T:A	W105R	0.979
3:189238743:T:C	W105R	0.979
3:189238748:C:A	N106K	0.978
3:189238748:C:G	N106K	0.978
3:189207583:T:C	F67L	0.977
3:189207585:T:A	F67L	0.977
3:189207585:T:G	F67L	0.977
3:189215311:C:A	A77D	0.976
3:189310487:T:C	F194S	0.973
3:189238759:A:T	E110V	0.969
3:189238882:T:C	F151S	0.969
3:189238789:T:C	L120P	0.968
3:189310496:A:G	H197R	0.967
3:189310497:T:A	H197Q	0.967
3:189310497:T:G	H197Q	0.967
3:189238747:A:T	N106I	0.964
3:189238745:G:C	W105C	0.963
3:189238745:G:T	W105C	0.963
3:189238804:A:C	Y125S	0.963
3:189320816:T:C	F275S	0.963
3:189207593:G:C	R70P	0.962
3:189238803:T:G	Y125D	0.962
3:189310403:T:C	L166P	0.959
3:189320788:T:G	Y266D	0.959
3:189320800:C:A	R270S	0.959

dbSNP variants (sampled 300 via entrez): RS1000003247 (3:189295775 T>C), RS1000008947 (3:189276681 A>G), RS1000009433 (3:189146984 C>T), RS1000056188 (3:189294570 A>T), RS1000059958 (3:189276970 A>C), RS1000066234 (3:189162762 T>TG), RS1000073274 (3:189297106 G>A), RS1000076468 (3:189078295 G>A), RS1000086935 (3:189150469 C>A,T), RS1000093997 (3:189162466 A>T), RS1000097212 (3:189229868 G>A,T), RS1000106698 (3:188997367 C>T), RS1000110405 (3:189123665 C>G), RS1000119717 (3:189271540 A>G), RS1000126407 (3:189064900 A>G)

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

7 associations (top):

Study	Trait	p-value
GCST002115_8	Axial length	3.000000e-07
GCST003327_8	Squamous cell carcinoma	1.000000e-11
GCST003479_2	Hair color	3.000000e-06
GCST006409_20	Allergic rhinitis	2.000000e-13
GCST009798_88	Asthma	5.000000e-11
GCST010148_6	Cutaneous squamous cell carcinoma	6.000000e-15
GCST012490_365	Femur bone mineral density x serum urate levels interaction	3.000000e-12

EFO canonical traits (3, from GWAS)

EFO ID	Trait name
EFO:0005318	axial length measurement
EFO:1001927	cutaneous squamous cell carcinoma
EFO:0004531	urate measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

18 total (human), top 18 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Benzo(a)pyrene	affects methylation, decreases expression, increases expression	3
methyleugenol	decreases expression	1
triphenyl phosphate	affects expression	1
bisphenol A	decreases methylation	1
sodium arsenate	decreases expression, increases abundance	1
3,4-dichloroaniline	decreases expression	1
sodium arsenite	increases expression	1
hydroquinone	increases expression	1
abrine	increases expression	1
bisphenol S	decreases expression	1
(+)-JQ1 compound	increases expression	1
Fulvestrant	increases methylation	1
Arsenic	decreases expression, increases abundance	1
Estradiol	affects cotreatment, decreases expression	1
N-Nitrosopyrrolidine	decreases expression	1
Tobacco Smoke Pollution	decreases expression	1
Aflatoxin B1	decreases methylation	1
Okadaic Acid	decreases expression	1

Cellosaurus cell lines

1 cell lines: 1 finite cell line

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

Cellosaurus	Name	Category	Sex
CVCL_B4GJ	WG4066	Finite cell line	Female

Clinical trials (associated diseases)

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