DERPC

Summary

DERPC (DERPC proline and glycine rich nuclear protein, HGNC:54084) is a protein-coding gene on chromosome 16q22.1, encoding Decreased expression in renal and prostate cancer protein (P0CG12). Potential tumor suppressor.

Located in nucleoplasm.

Source: NCBI Gene 113455421 — automated summary from GO annotations (Alliance of Genome Resources).

At a glance

• Constraint (gnomAD): pLI 0.34 (intermediate), LOEUF 1.84 (unconstrained)
• MANE Select transcript: NM_001002847

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:54084
Approved symbol	DERPC
Name	DERPC proline and glycine rich nuclear protein
Location	16q22.1
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000286140
Ensembl biotype	protein_coding
OMIM	621352
Entrez	113455421

Gene structure

Transcript identifiers

Ensembl transcripts: 4 — 4 protein_coding

MANE Select: ENST00000519520

Transcript support level (Ensembl TSL; 1 = fully mRNA-supported): TSL 2: 1

ENST00000519520, ENST00000306585, ENST00000988192, ENST00001132703

RefSeq mRNA: 5 — MANE Select: NM_001002847 NM_001002847, NM_001040144, NM_001366602, NM_001366603, NM_001366604

CCDS: CCDS92188

Canonical transcript exons

ENST00000519520 — 3 exons

Exon	Start	End
ENSE00003606231	69118010	69120649
ENSE00003846850	69121436	69121493
ENSE00003923433	69132484	69132588

Expression profiles

Bgee: expression breadth ubiquitous, 133 present calls, max score 88.38.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 51.5794 / max 263.1907, expressed in 1820 samples.

Highest expression (Bgee): ganglionic eminence, mucosa of transverse colon, ventricular zone, placenta, granulocyte.

FANTOM5 promoters

2 alternative TSS:

Promoter ID	TPM avg	Samples expressed
157891	51.5794	1820
157890	1.9919	1160

Top tissues by expression

showing 100 of 133 tissues by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
ganglionic eminence	UBERON:0004023	88.38	gold quality
mucosa of transverse colon	UBERON:0004991	87.63	gold quality
ventricular zone	UBERON:0003053	87.32	gold quality
placenta	UBERON:0001987	86.70	gold quality
granulocyte	CL:0000094	86.58	gold quality
lymph node	UBERON:0000029	85.71	gold quality
cortical plate	UBERON:0005343	84.86	gold quality
right lobe of liver	UBERON:0001114	84.66	gold quality
vermiform appendix	UBERON:0001154	84.14	gold quality
colonic epithelium	UBERON:0000397	83.90	gold quality
apex of heart	UBERON:0002098	83.82	gold quality
lower esophagus mucosa	UBERON:0035834	83.20	gold quality
right uterine tube	UBERON:0001302	83.10	gold quality
spleen	UBERON:0002106	82.90	gold quality
islet of Langerhans	UBERON:0000006	82.85	gold quality
gall bladder	UBERON:0002110	82.46	gold quality
fallopian tube	UBERON:0003889	82.37	gold quality
adult mammalian kidney	UBERON:0000082	82.27	gold quality
metanephros cortex	UBERON:0010533	82.11	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	81.79	gold quality
smooth muscle tissue	UBERON:0001135	81.78	gold quality
urinary bladder	UBERON:0001255	81.64	gold quality
skin of leg	UBERON:0001511	81.60	gold quality
right lobe of thyroid gland	UBERON:0001119	81.54	gold quality
heart left ventricle	UBERON:0002084	81.30	gold quality
esophagus mucosa	UBERON:0002469	81.28	gold quality
zone of skin	UBERON:0000014	81.16	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	81.12	gold quality
esophagus	UBERON:0001043	80.95	gold quality
right coronary artery	UBERON:0001625	80.89	gold quality
prefrontal cortex	UBERON:0000451	80.79	gold quality
cortex of kidney	UBERON:0001225	80.63	gold quality
lower esophagus	UBERON:0013473	80.56	gold quality
lower esophagus muscularis layer	UBERON:0035833	80.54	gold quality
fundus of stomach	UBERON:0001160	80.52	gold quality
muscle layer of sigmoid colon	UBERON:0035805	80.50	gold quality
subcutaneous adipose tissue	UBERON:0002190	80.48	gold quality
skin of abdomen	UBERON:0001416	80.45	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	80.38	gold quality
kidney	UBERON:0002113	80.34	gold quality
prostate gland	UBERON:0002367	80.29	gold quality
hindlimb stylopod muscle	UBERON:0004252	80.25	gold quality
pituitary gland	UBERON:0000007	80.24	gold quality
body of stomach	UBERON:0001161	80.12	gold quality
right ovary	UBERON:0002118	80.12	gold quality
tonsil	UBERON:0002372	80.08	gold quality
bone marrow cell	CL:0002092	79.98	gold quality
adipose tissue	UBERON:0001013	79.87	gold quality
pancreas	UBERON:0001264	79.86	gold quality
upper lobe of left lung	UBERON:0008952	79.77	gold quality
bone marrow	UBERON:0002371	79.75	gold quality
rectum	UBERON:0001052	79.71	gold quality
adenohypophysis	UBERON:0002196	79.71	gold quality
stromal cell of endometrium	CL:0002255	79.70	gold quality
ovary	UBERON:0000992	79.61	gold quality
heart	UBERON:0000948	79.58	gold quality
omental fat pad	UBERON:0010414	79.57	gold quality
frontal cortex	UBERON:0001870	79.37	gold quality
thyroid gland	UBERON:0002046	79.35	gold quality
gastrocnemius	UBERON:0001388	79.10	gold quality
left ovary	UBERON:0002119	79.06	gold quality
transverse colon	UBERON:0001157	79.05	gold quality
right frontal lobe	UBERON:0002810	79.03	gold quality
colon	UBERON:0001155	78.98	gold quality
popliteal artery	UBERON:0002250	78.94	gold quality
tibial artery	UBERON:0007610	78.93	gold quality
left lobe of thyroid gland	UBERON:0001120	78.90	gold quality
multicellular organism	UBERON:0000468	78.87	gold quality
right adrenal gland cortex	UBERON:0035827	78.85	gold quality
stomach	UBERON:0000945	78.81	gold quality
body of uterus	UBERON:0009853	78.78	gold quality
descending thoracic aorta	UBERON:0002345	78.74	gold quality
ascending aorta	UBERON:0001496	78.67	gold quality
cerebellar hemisphere	UBERON:0002245	78.67	gold quality
left uterine tube	UBERON:0001303	78.65	gold quality
cerebellum	UBERON:0002037	78.65	gold quality
cerebellar cortex	UBERON:0002129	78.64	gold quality
myometrium	UBERON:0001296	78.63	gold quality
thoracic aorta	UBERON:0001515	78.62	gold quality
right adrenal gland	UBERON:0001233	78.58	gold quality
ectocervix	UBERON:0012249	78.52	gold quality
nucleus accumbens	UBERON:0001882	78.51	gold quality
tibial nerve	UBERON:0001323	78.43	gold quality
leukocyte	CL:0000738	78.42	gold quality
right hemisphere of cerebellum	UBERON:0014890	78.38	gold quality
intestine	UBERON:0000160	78.37	gold quality
left coronary artery	UBERON:0001626	78.36	gold quality
putamen	UBERON:0001874	78.31	gold quality
blood	UBERON:0000178	78.25	gold quality
body of pancreas	UBERON:0001150	78.12	gold quality
right atrium auricular region	UBERON:0006631	78.04	gold quality
vagina	UBERON:0000996	78.02	gold quality
lung	UBERON:0002048	77.94	gold quality
small intestine Peyer’s patch	UBERON:0003454	77.84	gold quality
amygdala	UBERON:0001876	77.82	gold quality
cerebral cortex	UBERON:0000956	77.80	gold quality
anterior cingulate cortex	UBERON:0009835	77.75	gold quality
thoracic mammary gland	UBERON:0005200	77.74	gold quality
monocyte	CL:0000576	77.70	gold quality
brain	UBERON:0000955	77.70	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.46

HPA expression

RNA tissue specificity: Low tissue specificity

showing 60 of 79 HPA tissues / cells by nTPM:

Tissue / cell	Axis	nTPM	Protein (IHC)
Basal ganglia	tissue	35.5	not detected
Putamen	tissue	34.8
Hippocampal formation	tissue	32.3
Ventral forebrain	tissue	31.8
Cerebral cortex	tissue	31.3	not detected
Somatosensory cortex	tissue	31.3
Motor cortex	tissue	30.9
Entorhinal cortex	tissue	30.5
Septum	tissue	30.3
Temporal cortex	tissue	30.3
Prefrontal cortex	tissue	30.2
Occipital cortex	tissue	29.6
Retrosplenial and cingulate cortex	tissue	28.4
Thalamus	tissue	28.2
Superior colliculi	tissue	28.2
Insular cortex	tissue	27.9
Amygdala	tissue	27.3
Midbrain	tissue	27.2
Hypothalamus	tissue	26.8
Retrosplenial cortex	tissue	26.6
Pons	tissue	26.2
Spinal cord	tissue	25.8
Substantia nigra	tissue	25.7
Medulla oblongata	tissue	25.4
Corpus callosum	tissue	25.0
Epididymis	tissue	24.5	low
Cerebellum	tissue	23.8	medium
Periaqueductal gray	tissue	22.8
Olfactory bulb	tissue	22.2
Placenta	tissue	18.4	low
Tonsil	tissue	17.8	medium
Lymph node	tissue	17.1	low
Thymus	tissue	16.9
Choroid plexus	tissue	16.3
Fallopian tube	tissue	15.6	medium
Ovary	tissue	15.0	low
Appendix	tissue	14.5	low
Skin 1	tissue	13.4	medium
Seminal vesicle	tissue	13.2	medium
Nucleus accumbens	tissue	12.8
Urinary bladder	tissue	12.6	medium
Breast	tissue	12.5	medium
Hippocampus	tissue	12.5	low
Spleen	tissue	11.8	low
Locus coeruleus	tissue	11.7
Cervix	tissue	11.3	medium
Esophagus	tissue	11.3	medium
Parathyroid gland	tissue	11.3	medium
Smooth muscle	tissue	11.3	medium
Colon	tissue	10.8	medium
Liver	tissue	10.8	medium
Testis	tissue	10.6	medium
Kidney	tissue	10.5	high
Gallbladder	tissue	10.4	medium
Prostate	tissue	10.3	low
Rectum	tissue	10.2	medium
Adrenal gland	tissue	10.1	low
Tongue	tissue	9.8
Postcentral gyrus	tissue	9.8
Pancreas	tissue	9.6	medium

Brain sub-regions (HPA Brain Atlas): detected in 191; highest nTPM — Dorsal hippocampus (32.3), Subiculum (31.0), Ventral hippocampus (30.9), Dorsal spinal cord (25.8), Ventral spinal cord (25.1).

Regulation

Is transcription factor: no

Functional genomics

gnomAD constraint: pLI 0.341, LOEUF 1.84, missense Z -0.222 — population loss-of-function intolerance (pLI ≥ 0.9 = LoF-intolerant; lower LOEUF = more constrained). gnomAD

Regional missense constraint (gnomAD RMC): no regional variation along ENST00000519520 — one region, missense o/e 1.68.

Literature-anchored findings (GeneRIF, showing 1)

• decreased expression of DERPC may be implicated in tumorigenesis of prostate and renal tumors (PMID:12477976)

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Derpc	ENSMUSG00000117748
rattus_norvegicus	Chtf8	ENSRNOG00000047246

Additional cross-species homologs

Sequence homologs in species beyond Ensembl Compara’s model organisms, by Diamond local protein alignment (% sequence identity; best hit per species). Lower-identity rows are more distant homologs. The matched accessions’ gene symbols aren’t in biobtree yet, so each row shows the UniProt accession.

Organism	UniProt	Identity	Method
Bos taurus	P0CG10	98.0%	Diamond

Genomic neighbors (locus context)

Genes flanking this one on the chromosome (NCBI/Entrez gene neighborhood). Positional context only — some neighbors share regulatory elements (bidirectional promoters, antisense/overlapping transcripts), but chromosomal adjacency is not itself a functional relationship (see Interactions for that).

Symbol	Type	Entrez
HAS3	protein-coding	3038
CHTF8	protein-coding	54921
TANGO6	protein-coding	79613
VPS4A	protein-coding	27183
PDF	protein-coding	64146
SNTB2	protein-coding	6645
COG8	protein-coding	84342
UTP4	protein-coding	84916
CDH1	protein-coding	999

Protein

Protein identifiers

Decreased expression in renal and prostate cancer protein — P0CG12 (reviewed: P0CG12)

All UniProt accessions (2): P0CG12, L0R4W3

UniProt curated annotations — full annotation on UniProt →

Function. Potential tumor suppressor. Inhibits prostate tumor cell growth, when overexpressed.

Subcellular location. Nucleus.

Tissue specificity. Ubiquitously expressed, with abundant expression in kidney, skeletal muscle, testis, liver, ovary, and heart and moderate expression in prostate. Expression is significantly reduced in renal and prostate tumors. No differential expression in breast cancer cells, between lobular carcinoma and normal lobules.

Miscellaneous. Found in a common chromosomal region of deletion in breast cancer.

Similarity. Belongs to the DERPC family.

RefSeq proteins (5): NP_001002847, NP_001035234, NP_001353531, NP_001353532, NP_001353533 (=MANE)

Domains & families (InterPro)

UniProt features (12 total): modified residue 4, compositionally biased region 4, region of interest 3, chain 1

Structure

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-P0CG12-F1	46.73	0.00

Human Protein Atlas

Protein class: Predicted intracellular proteins

Protein evidence: Evidence at protein level

Subcellular location (HPA, imaging): nucleoplasm

Antibody reliability (HPA): IH approved · IF enhanced

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 (4)

Type	Positions
Omega-n-methylarginine	387
Phosphoserine	423, 302
Asymmetric dimethylarginine	364

Function

Pathways and Gene Ontology

Reactome pathways

0 curated (TAS) of 0; 0 disease pathways. Curated-first; evidence = TAS (manually curated) vs IEA (electronic inference).

MSigDB gene sets: 11 (showing top): chr16q22, CAGGTCC_MIR492, CAGCTTT_MIR320, FEVR_CTNNB1_TARGETS_DN, CTCAGGG_MIR125B_MIR125A, MOHANKUMAR_HOXA1_TARGETS_UP, ZHANG_FH_DEFICIENT_RCC_C2_VS_OTHERS_UP, GENES_CORRELATED_WITH_MN1_DELETION, GENES_CORRELATED_WITH_PDGFRB_DELETION, GCTTGAA_MIR498, CACTGTG_MIR128A_MIR128B

GO Cellular Component (3): nucleoplasm (GO:0005654), extracellular exosome (GO:0070062), nucleus (GO:0005634)

GO top-level categories

4 GO namespaces:

Category	Terms
nuclear lumen	1
cellular anatomical structure	1
extracellular vesicle	1
intracellular membrane-bounded organelle	1

Experimentally-supported GO annotations

GO terms backed by direct experimental evidence (ECO experimental codes) — 2 of 3 annotations. The rest are phylogenetic / computational / electronic (IEA).

2 experimentally-supported GO terms:

GO term	NS	Evidence
extracellular exosome	CC	high-throughput assay
nucleoplasm	CC	direct assay

Protein interactions and networks

STRING

showing 15 of 86 interactions by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
DERPC	DPEP1	P16444	443
DERPC	RFC1	P35251	288
DERPC	CTCF	P49711	238
DERPC	CHTF18	Q8WVB6	236
DERPC	RNF138	Q8WVD3	212
DERPC	RNF113A	O15541	203
DERPC	CDH17	Q12864	199
DERPC	TCEA1	P23193	187
DERPC	UHRF2	Q96PU4	175
DERPC	PPM1G	O15355	167
DERPC	CCDC82	Q8N4S0	167
DERPC	RFC3	P40938	147
DERPC	LRGUK	Q96M69	64
DERPC	MED14	O60244	62
DERPC	WDR90	Q96KV7	55

Disease & clinical

Genetic variants

ClinVar

No ClinVar records for this gene.

SpliceAI

Top 10 splice-impact sites by Δscore (adjacent positions with the same effect merged into one range; 29 predictions of 298):

Position(s)	Effect	Δscore	Sites
16:69121171–69121172	acceptor_loss	1.0000	5
16:69121435	donor_loss	1.0000
16:69121494–69121495	acceptor_loss	1.0000	6
16:69132483	donor_loss	1.0000
16:69121051–69121052	donor_loss	0.9900	5
16:69121171	acceptor_loss	0.9900
16:69121434–69121435	donor_loss	0.9900	3
16:69121496	acceptor_gain	0.9900
16:69132482–69132483	donor_loss	0.9900	4
16:69120650–69120652	acceptor_gain	0.9800	2

AlphaMissense

346 missense substitutions predicted likely pathogenic (of 3,288 scored), across 124 residues. Top 20 hotspot residues, ranked by the number of likely-pathogenic substitutions (of those reachable by a single-nucleotide change), then by mean score:

Residue	Likely-pathogenic substitutions	Mean am_pathogenicity	Max am_pathogenicity
W15	7	0.862	0.953
F492	7	0.825	0.947
F7	7	0.799	0.916
E10	7	0.730	0.879
E3	7	0.702	0.853
M521	6	0.686	0.703
F413	5	0.866	0.916
F399	5	0.865	0.909
F385	5	0.855	0.922
F362	5	0.845	0.911
F506	5	0.836	0.917
F51	5	0.825	0.912
R280	5	0.819	0.885
F464	5	0.812	0.901
F98	5	0.809	0.898
F348	5	0.790	0.883
F478	5	0.783	0.848
K2	5	0.780	0.908
F65	5	0.769	0.867
G520	4	0.839	0.861

HPA cancer prognostics

RNA cancer specificity: Low cancer specificity

Human Protein Atlas survival analysis — favorable = higher expression predicts better survival.

2 prognostic cancer types:

Cancer	Prognostic	p-value
Breast Invasive Carcinoma (TCGA)	unfavorable	0.000314
Kidney Renal Papillary Cell Carcinoma (TCGA)	favorable	0.000892

Disease associations

OMIM: gene MIM:621352 | disease phenotypes:

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (CPIC guideline: no)

CTD chemical–gene interactions

2 total (human), top 2 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Cadmium Chloride	increases expression	1
Okadaic Acid	increases expression	1

Clinical trials (associated diseases)

Via MONDO — disease-level, not drug-specific.