DEPP1

Summary

DEPP1 (DEPP autophagy regulator 1, HGNC:23355) is a protein-coding gene on chromosome 10q11.21, encoding Protein DEPP1 (Q9NTK1). Acts as a critical modulator of FOXO3-induced autophagy via increased cellular ROS.

The expression of this gene is induced by fasting as well as by progesterone. The protein encoded by this gene contains a t-synaptosome-associated protein receptor (SNARE) coiled-coil homology domain and a peroxisomal targeting signal. Production of the encoded protein leads to phosphorylation and activation of the transcription factor ELK1.

Source: NCBI Gene 11067 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 5 total
• MANE Select transcript: NM_007021

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:23355
Approved symbol	DEPP1
Name	DEPP autophagy regulator 1
Location	10q11.21
Locus type	gene with protein product
Status	Approved
Aliases	DEPP, FIG, Fseg
Ensembl gene	ENSG00000165507
Ensembl biotype	protein_coding
OMIM	611309
Entrez	11067

Gene structure

Transcript identifiers

Ensembl transcripts: 5 — 4 protein_coding, 1 protein_coding_CDS_not_defined

ENST00000298295, ENST00000448778, ENST00000496638, ENST00000953061, ENST00000953062

RefSeq mRNA: 1 — MANE Select: NM_007021 NM_007021

CCDS: CCDS7210

Canonical transcript exons

ENST00000298295 — 2 exons

Exon	Start	End
ENSE00001093671	44976128	44978055
ENSE00001093672	44978618	44978809

Expression profiles

Bgee: expression breadth ubiquitous, 286 present calls, max score 99.63.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 69.6295 / max 5841.0878, expressed in 1494 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
109222	69.6295	1494

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
type B pancreatic cell	CL:0000169	99.63	gold quality
pericardium	UBERON:0002407	99.55	gold quality
right lung	UBERON:0002167	99.52	gold quality
saphenous vein	UBERON:0007318	99.35	gold quality
mucosa of stomach	UBERON:0001199	99.24	gold quality
vena cava	UBERON:0004087	99.18	gold quality
omental fat pad	UBERON:0010414	99.15	gold quality
peritoneum	UBERON:0002358	99.13	gold quality
adipose tissue of abdominal region	UBERON:0007808	99.13	gold quality
peripheral nervous system	UBERON:0000010	99.10	gold quality
nerve	UBERON:0001021	99.10	gold quality
tibial nerve	UBERON:0001323	99.10	gold quality
right coronary artery	UBERON:0001625	99.03	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	98.92	gold quality
descending thoracic aorta	UBERON:0002345	98.87	gold quality
left uterine tube	UBERON:0001303	98.85	gold quality
popliteal artery	UBERON:0002250	98.81	gold quality
tibial artery	UBERON:0007610	98.81	gold quality
subcutaneous adipose tissue	UBERON:0002190	98.79	gold quality
adipose tissue	UBERON:0001013	98.71	gold quality
artery	UBERON:0001637	98.69	gold quality
body of pancreas	UBERON:0001150	98.68	gold quality
aorta	UBERON:0000947	98.59	gold quality
olfactory bulb	UBERON:0002264	98.58	gold quality
decidua	UBERON:0002450	98.47	gold quality
ascending aorta	UBERON:0001496	98.40	gold quality
thoracic aorta	UBERON:0001515	98.37	gold quality
islet of Langerhans	UBERON:0000006	98.29	gold quality
connective tissue	UBERON:0002384	98.28	gold quality
coronary artery	UBERON:0001621	98.07	gold quality

Single-cell (SCXA)

Detected in 18 experiment(s), a significant marker in 17.

Experiment	Marker?	Max mean expression
E-MTAB-6308	yes	4578.96
E-CURD-126	yes	4182.86
E-GEOD-135922	yes	3430.40
E-GEOD-134144	yes	1166.20
E-HCAD-31	yes	941.98
E-MTAB-8271	yes	522.74
E-MTAB-8142	yes	138.39
E-HCAD-1	yes	49.21
E-MTAB-10287	yes	45.49
E-HCAD-6	yes	41.63
E-MTAB-6701	yes	16.89
E-HCAD-4	yes	16.49
E-MTAB-9067	yes	14.01
E-MTAB-6678	yes	8.43
E-GEOD-130148	yes	4.90

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): HNF4A, KLF15, NCOR1, NR4A1, PPARA, STAT3, TCF3

miRNA regulators (miRDB)

31 targeting DEPP1, 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-3613-3P	100.00	76.36	7965
HSA-MIR-4715-3P	99.98	66.03	670
HSA-MIR-4671-3P	99.88	72.46	1045
HSA-MIR-765	99.84	68.24	2442
HSA-MIR-4639-5P	99.81	67.37	1028
HSA-MIR-6817-3P	99.79	68.35	2126
HSA-MIR-11181-3P	99.75	66.38	2205
HSA-MIR-4755-5P	99.71	70.34	2716
HSA-MIR-5006-3P	99.71	70.26	2728
HSA-MIR-3158-5P	99.65	67.51	1763
HSA-MIR-4761-5P	99.51	66.69	804
HSA-MIR-4687-3P	99.48	66.41	968
HSA-MIR-3123	99.47	67.15	2693
HSA-MIR-3911	99.38	66.95	1087
HSA-MIR-4311	99.31	70.47	3041
HSA-MIR-449B-3P	99.20	67.24	1047
HSA-MIR-4279	99.19	66.70	2437
HSA-MIR-5583-3P	99.06	65.68	1018
HSA-MIR-603	98.58	68.28	1603
HSA-MIR-299-5P	98.56	71.14	1140
HSA-MIR-216B-3P	98.55	67.19	1223
HSA-MIR-6827-5P	98.46	64.88	1256
HSA-MIR-1279	97.83	67.50	1898
HSA-MIR-4432	97.80	67.87	705
HSA-MIR-495-5P	97.62	68.28	682
HSA-MIR-3928-3P	97.61	66.53	1096
HSA-MIR-3190-3P	97.61	66.95	1406
HSA-MIR-4286	97.20	64.37	1587
HSA-MIR-6858-3P	96.37	64.41	771
HSA-MIR-139-3P	95.24	63.10	316

Literature-anchored findings (GeneRIF, showing 8)

• Expressed in endothelial cells of peripheral tissues, but not in atrial or ventricular endocardial cells of the heart, unexpected degree of molecular heterogeneity among arterial endothelial cells, up-regulated in subsets of endothelial cells. (PMID:15977181)
• Depp modulates the effects of progesterone during decidualization and in the decidua by affecting gene expression. (PMID:16123073)
• DEPP is a novel insulin-regulatory molecule expressed abundantly in insulin-sensitive tissues including white adipose tissue and liver. (PMID:19937567)
• DEPP is regulated at the level of transcription by FoxO in human vascular endothelial cells (PMID:21510935)
• C10orf10 expression is frequently decreased in breast cancer tissues and is associated with shorter survival times. (PMID:24936657)
• Knockdown of DEPP prevented the primary and secondary reactive oxygen species wave during FOXO3 activation. (PMID:25261981)
• The Expression of Decidual Protein Induced by Progesterone (DEPP) is Controlled by Three Distal Consensus Hypoxia Responsive Element (HRE) in Hypoxic Retinal Epithelial Cells. (PMID:31963726)
• C10orf10/DEPP activates mitochondrial autophagy and maintains chondrocyte viability in the pathogenesis of osteoarthritis. (PMID:34997944)

Cross-species orthologs

4 orthologs

Organism	Symbol	Gene ID
danio_rerio	si:dkeyp-72g9.4	ENSDARG00000073704
danio_rerio	si:ch73-6k14.2	ENSDARG00000096031
mus_musculus	Depp1	ENSMUSG00000048489
rattus_norvegicus	Depp1	ENSRNOG00000023465

Protein

Protein identifiers

Protein DEPP1 — Q9NTK1 (reviewed: Q9NTK1)

Alternative names: Decidual protein induced by progesterone, Fasting-induced gene protein

All UniProt accessions (2): Q9NTK1, X6RKE0

UniProt curated annotations — full annotation on UniProt →

Function. Acts as a critical modulator of FOXO3-induced autophagy via increased cellular ROS.

Subcellular location. Cytoplasm. Peroxisome. Mitochondrion.

Tissue specificity. Expressed in various tissues, including pancreas, placenta, ovary, testis and kidney.

Induction. By progesterone, testosterone and, to a much lower extent, estrogen. Induced by oxidative stress via FOXO3 activation. Up-regulated by hypoxia (at protein level).

RefSeq proteins (1): NP_008952* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR020133	DEPP	Family

Pfam: PF15343

UniProt features (8 total): region of interest 3, sequence conflict 2, chain 1, compositionally biased region 1, sequence variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q9NTK1-F1	60.32	0.06

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 176 (showing top): MODULE_52, HORIUCHI_WTAP_TARGETS_DN, GOBP_REGULATION_OF_AUTOPHAGY, BROWNE_HCMV_INFECTION_6HR_DN, MCLACHLAN_DENTAL_CARIES_UP, ONDER_CDH1_TARGETS_3_DN, PICCALUGA_ANGIOIMMUNOBLASTIC_LYMPHOMA_UP, CHEN_LVAD_SUPPORT_OF_FAILING_HEART_UP, GOBP_REGULATION_OF_CATABOLIC_PROCESS, ACEVEDO_LIVER_TUMOR_VS_NORMAL_ADJACENT_TISSUE_DN, GROSS_HYPOXIA_VIA_ELK3_DN, GROSS_HYPOXIA_VIA_HIF1A_DN, GROSS_HYPOXIA_VIA_ELK3_AND_HIF1A_UP, TURASHVILI_BREAST_DUCTAL_CARCINOMA_VS_DUCTAL_NORMAL_DN, MODULE_88

GO Biological Process (2): autophagy (GO:0006914), regulation of autophagy (GO:0010506)

GO Molecular Function (0):

GO Cellular Component (3): cytoplasm (GO:0005737), mitochondrion (GO:0005739), peroxisome (GO:0005777)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
catabolic process	1
transmembrane transport	1
process utilizing autophagic mechanism	1
autophagy	1
regulation of catabolic process	1
intracellular anatomical structure	1
cellular anatomical structure	1
cytoplasm	1
intracellular membrane-bounded organelle	1
microbody	1

Protein interactions and networks

STRING

364 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
DEPP1	CRNN	Q9UBG3	952
DEPP1	RPTN	Q6XPR3	936
DEPP1	CCDC171	Q6TFL3	459
DEPP1	WDR38	Q5JTN6	393
DEPP1	SPEM3	A0A1B0GUW6	368
DEPP1	WFDC13	Q8IUB5	336
DEPP1	SPINT4	Q6UDR6	311
DEPP1	AFAP1L2	Q8N4X5	293
DEPP1	PRRT2	Q7Z6L0	275
DEPP1	C11orf87	Q6NUJ2	270
DEPP1	GARIN3	Q8TC56	270
DEPP1	SPATA31F1	Q6ZU69	269
DEPP1	GPATCH11	Q8N954	268
DEPP1	ZNF574	Q6ZN55	266
DEPP1	PCOLCE2	Q9UKZ9	256

IntAct

13 interactions, top by confidence:

A	B	Type	Score
TRIM23	DEPP1	psi-mi:“MI:0915”(physical association)	0.490
DEPP1	CCNDBP1	psi-mi:“MI:0915”(physical association)	0.370
DEPP1	LDOC1	psi-mi:“MI:0915”(physical association)	0.370
KRT15	DEPP1	psi-mi:“MI:0915”(physical association)	0.370
DEPP1	USHBP1	psi-mi:“MI:0915”(physical association)	0.370
KRT19	DEPP1	psi-mi:“MI:0915”(physical association)	0.370
CCDC85B	DEPP1	psi-mi:“MI:0915”(physical association)	0.370
PLSCR1	DEPP1	psi-mi:“MI:0915”(physical association)	0.370
DEPP1	MYCBP	psi-mi:“MI:0915”(physical association)	0.000
	DEPP1	psi-mi:“MI:0915”(physical association)	0.000
DEPP1	QKI	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (8): C10orf10 (Two-hybrid), USHBP1 (Two-hybrid), C10orf10 (Two-hybrid), C10orf10 (Two-hybrid), C10orf10 (Two-hybrid), C10orf10 (Negative Genetic), C10orf10 (Two-hybrid), TRIM23 (Two-hybrid)

ESM2 similar proteins: A0A1B0GVZ6, A5D7I0, A6H7B4, A6NDZ8, A6NE82, A6NJ08, A6NJB7, A6NJI1, A6NL46, A6QP24, A8MUA0, A8MUI8, A8MV72, A8MX80, B2RW88, O94850, P0C6A0, P24097, P50617, Q0P5M0, Q0VD86, Q2KIL8, Q3B8N5, Q3SY00, Q3SYA9, Q3UN58, Q5BMD4, Q5JTZ5, Q5RBE4, Q5VZ46, Q66MI6, Q68US1, Q6GQV0, Q6PAC4, Q80TS7, Q80VY2, Q8BFY7, Q8BII1, Q8IXW0, Q8K2F3

Diamond homologs: Q5BMD4, Q5RBE4, Q8K2F3, Q9NTK1

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	2
Likely benign	2
Benign	1

Top pathogenic / likely-pathogenic (0)

SpliceAI

176 predictions. Top by Δscore:

Variant	Effect	Δscore
10:44971767:TTTTA:T	acceptor_loss	1.0000
10:44971768:TTTAG:T	acceptor_loss	1.0000
10:44971769:TTA:T	acceptor_loss	1.0000
10:44971770:TAG:T	acceptor_loss	1.0000
10:44971772:G:A	acceptor_loss	1.0000
10:44971846:GAGGT:G	donor_loss	1.0000
10:44971848:GGTG:G	donor_loss	1.0000
10:44971849:GTGAG:G	donor_loss	1.0000
10:44971850:T:G	donor_loss	1.0000
10:44978055:CCTG:C	acceptor_loss	1.0000
10:44978615:TACC:T	donor_loss	1.0000
10:44978617:C:CT	donor_loss	1.0000
10:44971771:A:AG	acceptor_gain	0.9900
10:44971771:AGGTC:A	acceptor_gain	0.9900
10:44971772:G:GG	acceptor_gain	0.9900
10:44971772:GGTCG:G	acceptor_gain	0.9900
10:44971844:GTGAG:G	donor_gain	0.9900
10:44978051:GCAAC:G	acceptor_gain	0.9900
10:44978052:CAAC:C	acceptor_gain	0.9900
10:44978052:CAACC:C	acceptor_gain	0.9900
10:44978053:AAC:A	acceptor_gain	0.9900
10:44978054:AC:A	acceptor_gain	0.9900
10:44978055:CC:C	acceptor_gain	0.9900
10:44978056:C:CC	acceptor_gain	0.9900
10:44978613:CTTA:C	donor_loss	0.9900
10:44978616:A:AC	donor_gain	0.9900
10:44978617:C:CC	donor_gain	0.9900
10:44971772:GGTC:G	acceptor_gain	0.9800
10:44971834:C:G	donor_gain	0.9800
10:44971847:AG:A	donor_gain	0.9800

AlphaMissense

1369 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
10:44977900:A:T	I44K	0.983
10:44977900:A:G	I44T	0.978
10:44977987:A:G	I15T	0.978
10:44977405:A:G	I209T	0.972
10:44977704:A:C	F109L	0.972
10:44977704:A:T	F109L	0.972
10:44977706:A:G	F109L	0.972
10:44977987:A:T	I15N	0.960
10:44977710:C:A	W107C	0.958
10:44977710:C:G	W107C	0.958
10:44977405:A:C	I209S	0.957
10:44977900:A:C	I44R	0.954
10:44977987:A:C	I15S	0.951
10:44977405:A:T	I209N	0.950
10:44977904:A:G	S43P	0.945
10:44977712:A:G	W107R	0.943
10:44977712:A:T	W107R	0.943
10:44977399:T:A	E211V	0.924
10:44977891:A:G	L47P	0.920
10:44977396:A:T	L212H	0.916
10:44977913:A:T	Y40N	0.913
10:44977706:A:T	F109I	0.912
10:44977912:T:G	Y40S	0.910
10:44977396:A:G	L212P	0.901
10:44977996:A:G	L12P	0.898
10:44977708:A:T	L108H	0.897
10:44977981:T:A	E17V	0.897
10:44977888:G:T	A48E	0.896
10:44977891:A:T	L47Q	0.896
10:44977913:A:G	Y40H	0.895

dbSNP variants (sampled 300 via entrez): RS1001161369 (10:44975959 T>C), RS1001230161 (10:44976253 C>T), RS1001450998 (10:44975997 G>A,C,T), RS1002398081 (10:44979881 G>A), RS1003351331 (10:44979048 G>C), RS1003816380 (10:44978844 T>C), RS1003951945 (10:44980608 C>A,G), RS1005015358 (10:44976093 T>C), RS1005035721 (10:44975903 G>A,T), RS1005520844 (10:44979846 C>T), RS1005572570 (10:44979350 G>A,T), RS1005623629 (10:44979089 C>A,G,T), RS1005803757 (10:44979621 G>T), RS1007323769 (10:44979112 A>T), RS1007594953 (10:44977037 C>G,T)

Disease associations

OMIM: gene MIM:611309 | 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

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

Chemical	Actions (top 5)	PubMed papers
Benzo(a)pyrene	affects expression, increases expression, increases methylation	5
Amitriptyline	increases expression	3
Estradiol	increases expression, decreases expression	3
Fluoxetine	increases expression	3
Progesterone	decreases reaction, increases expression	3
Tamoxifen	decreases expression, increases expression	3
Valproic Acid	decreases expression, increases expression	3
Cyclosporine	affects expression, decreases expression, increases expression	3
bisphenol A	increases expression, affects cotreatment	2
nickel sulfate	increases expression	2
S-(1,2-dichlorovinyl)cysteine	decreases expression, affects response to substance, increases expression	2
Acetaminophen	decreases expression	2
trans-1,4-Bis(2-chlorobenzaminomethyl)cyclohexane Dihydrochloride	increases expression	2
Chlorpromazine	increases expression	2
Cisplatin	affects cotreatment, increases expression, affects expression	2
Clomipramine	increases expression	2
Clozapine	increases expression	2
Dexamethasone	increases expression, affects cotreatment	2
Flecainide	increases expression	2
Imipramine	increases expression	2
Indomethacin	decreases expression, affects cotreatment, increases expression	2
Ketoconazole	increases expression, decreases expression	2
Perhexiline	increases expression	2
Phenylmercuric Acetate	affects cotreatment, increases expression	2
Tetrachlorodibenzodioxin	increases expression, decreases expression	2
Thioridazine	increases expression	2
Zimeldine	increases expression	2
Aflatoxin B1	increases expression	2
Cadmium Chloride	decreases expression, increases expression	2
Sertraline	increases expression	2

Clinical trials (associated diseases)

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