CORO2A

Summary

CORO2A (coronin 2A, HGNC:2255) is a protein-coding gene on chromosome 9q22.33, encoding Coronin-2A (Q92828).

This gene encodes a member of the WD repeat protein family. WD repeats are minimally conserved regions of approximately 40 amino acids typically bracketed by gly-his and trp-asp (GH-WD), which may facilitate formation of heterotrimeric or multiprotein complexes. Members of this family are involved in a variety of cellular processes, including cell cycle progression, signal transduction, apoptosis, and gene regulation. This protein contains 5 WD repeats, and has a structural similarity with actin-binding proteins: the D. discoideum coronin and the human p57 protein, suggesting that this protein may also be an actin-binding protein that regulates cell motility. Alternative splicing of this gene generates 2 transcript variants.

Source: NCBI Gene 7464 — RefSeq curated summary.

At a glance

• GWAS associations: 2
• Clinical variants (ClinVar): 117 total
• GTEx eGene: eQTL in 34 tissues, sQTL in 0 (q < 0.05)
• Constraint (gnomAD): pLI 0.00 (LoF-tolerant), LOEUF 0.90 (unconstrained)
• MANE Select transcript: NM_052820
• Notable: 117 clinical variants but no curated precision-oncology (CIViC) evidence yet

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:2255
Approved symbol	CORO2A
Name	coronin 2A
Location	9q22.33
Locus type	gene with protein product
Status	Approved
Aliases	IR10, WDR2
Ensembl gene	ENSG00000106789
Ensembl biotype	protein_coding
OMIM	602159
Entrez	7464

Gene structure

Transcript identifiers

Ensembl transcripts: 24 — 19 protein_coding, 5 nonsense_mediated_decay

MANE Select: ENST00000375077

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

ENST00000375077, ENST00000343933, ENST00000871381, ENST00000871382, ENST00000871383, ENST00000871384, ENST00000871385, ENST00000871386, ENST00000871387, ENST00000930884, ENST00000930885, ENST00000930886, ENST00000948660, ENST00000948661, ENST00000948662, ENST00000975973, ENST00000975974, ENST00001013792, ENST00001065749, ENST00001065750, ENST00001065752, ENST00001065754, ENST00001065755, ENST00001136895

RefSeq mRNA: 2 — MANE Select: NM_052820 NM_003389, NM_052820

CCDS: CCDS6735

Canonical transcript exons

ENST00000375077 — 12 exons

Exon	Start	End
ENSE00000715194	98126549	98126823
ENSE00000715198	98128607	98128719
ENSE00000715200	98129794	98129890
ENSE00000715202	98130955	98131059
ENSE00000715204	98132185	98132301
ENSE00000715206	98133038	98133217
ENSE00000715209	98134806	98134955
ENSE00000715212	98137572	98137688
ENSE00001281957	98128170	98128260
ENSE00001353517	98192559	98192637
ENSE00001465684	98120975	98124905
ENSE00001465687	98157460	98157660

Expression profiles

Bgee: expression breadth ubiquitous, 216 present calls, max score 89.83.

FANTOM5 (CAGE): breadth broad, TPM avg 2.3477 / max 51.9883, expressed in 808 samples.

Highest expression (Bgee): jejunal mucosa, duodenum, mucosa of transverse colon, gall bladder, lower esophagus mucosa.

Genetic regulation across tissues (GTEx eQTL / sQTL)

CORO2A is an eGene in GTEx v10 — its expression is genetically regulated (eQTL) in 34 tissues and its splicing (sQTL) in 0 (q < 0.05). Strongest associations first; slope = normalized effect of the lead variant’s alternative allele.

showing 20 of 34 significant tissue × QTL associations:

Tissue	QTL	q-value	Slope	Lead variant
Whole Blood	eqtl	7.1e-52	-0.68	9:98120227:A:G
Cells EBV-transformed lymphocytes	eqtl	7.6e-42	+1.00	9:98192147:G:A
Cells Cultured fibroblasts	eqtl	4.0e-36	+0.72	9:98270616:G:A
Thyroid	eqtl	1.4e-22	+0.50	9:98206208:A:G
Nerve Tibial	eqtl	1.7e-19	-0.56	9:98174697:T:C
Skin Sun Exposed Lower leg	eqtl	8.9e-18	-0.27	9:98182438:A:G
Artery Aorta	eqtl	8.0e-16	+0.79	9:98192300:G:A
Skin Not Sun Exposed Suprapubic	eqtl	2.3e-14	-0.30	9:98182438:A:G
Adipose Visceral Omentum	eqtl	3.6e-13	-0.42	9:98174697:T:C
Adipose Subcutaneous	eqtl	1.2e-11	-0.37	9:98174697:T:C
Brain Cortex	eqtl	5.7e-11	+0.31	9:98189556:G:T
Esophagus Muscularis	eqtl	6.1e-11	-0.45	9:98174697:T:C
Muscle Skeletal	eqtl	8.4e-11	-0.29	9:98121421:AT:A
Heart Atrial Appendage	eqtl	3.4e-08	+0.77	9:98192300:G:A
Esophagus Mucosa	eqtl	1.7e-07	+0.34	9:98204883:A:G
Spleen	eqtl	9.1e-07	-0.35	9:98122244:C:T
Artery Tibial	eqtl	1.5e-06	+0.35	9:98192300:G:A
Brain Anterior cingulate cortex BA24	eqtl	1.6e-05	+0.24	9:98189556:G:T
Brain Frontal Cortex BA9	eqtl	2.1e-05	+0.20	9:98189556:G:T
Brain Hippocampus	eqtl	2.5e-05	-0.32	9:98209940:CACCT:C

FANTOM5 promoters

2 alternative TSS:

Promoter ID	TPM avg	Samples expressed
101673	2.3409	802
101670	0.0068	3

Top tissues by expression

showing 100 of 283 tissues by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
jejunal mucosa	UBERON:0000399	89.83	gold quality
duodenum	UBERON:0002114	88.71	gold quality
mucosa of transverse colon	UBERON:0004991	87.32	gold quality
gall bladder	UBERON:0002110	86.51	gold quality
lower esophagus mucosa	UBERON:0035834	84.52	gold quality
penis	UBERON:0000989	83.97	gold quality
bronchial epithelial cell	CL:0002328	83.79	gold quality
esophagus mucosa	UBERON:0002469	82.91	gold quality
colonic mucosa	UBERON:0000317	82.89	gold quality
rectum	UBERON:0001052	82.73	gold quality
dorsal root ganglion	UBERON:0000044	82.35	gold quality
pharyngeal mucosa	UBERON:0000355	81.72	gold quality
jejunum	UBERON:0002115	81.63	gold quality
small intestine	UBERON:0002108	81.59	gold quality
small intestine Peyer’s patch	UBERON:0003454	81.28	gold quality
mucosa of sigmoid colon	UBERON:0004993	80.50	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	80.48	gold quality
mucosa of paranasal sinus	UBERON:0005030	79.77	gold quality
oocyte	CL:0000023	79.54	gold quality
bone marrow	UBERON:0002371	79.27	gold quality
transverse colon	UBERON:0001157	79.21	gold quality
lower lobe of lung	UBERON:0008949	79.15	gold quality
ileal mucosa	UBERON:0000331	78.66	gold quality
buccal mucosa cell	CL:0002336	78.53	silver quality
esophagus squamous epithelium	UBERON:0006920	78.51	gold quality
trabecular bone tissue	UBERON:0002483	78.28	gold quality
epithelium of bronchus	UBERON:0002031	78.09	gold quality
bronchus	UBERON:0002185	77.91	gold quality
cerebellar hemisphere	UBERON:0002245	77.56	gold quality
cerebellar cortex	UBERON:0002129	77.55	gold quality
palpebral conjunctiva	UBERON:0001812	77.45	gold quality
epithelium of nasopharynx	UBERON:0001951	77.29	gold quality
vagina	UBERON:0000996	77.24	gold quality
upper leg skin	UBERON:0004262	77.20	gold quality
prostate gland	UBERON:0002367	77.11	gold quality
right hemisphere of cerebellum	UBERON:0014890	76.71	gold quality
cerebellum	UBERON:0002037	76.45	gold quality
nasal cavity mucosa	UBERON:0001826	76.41	gold quality
skin of leg	UBERON:0001511	76.34	gold quality
oral cavity	UBERON:0000167	76.24	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	76.19	gold quality
skin of abdomen	UBERON:0001416	76.08	gold quality
amniotic fluid	UBERON:0000173	75.78	gold quality
trigeminal ganglion	UBERON:0001675	75.54	gold quality
intestine	UBERON:0000160	75.45	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	75.35	gold quality
zone of skin	UBERON:0000014	75.33	gold quality
trachea	UBERON:0003126	74.97	silver quality
cortical plate	UBERON:0005343	74.81	gold quality
pylorus	UBERON:0001166	74.70	gold quality
minor salivary gland	UBERON:0001830	74.59	gold quality
testis	UBERON:0000473	74.49	gold quality
secondary oocyte	CL:0000655	74.38	gold quality
monocyte	CL:0000576	74.30	gold quality
nasal cavity epithelium	UBERON:0005384	74.27	silver quality
right testis	UBERON:0004534	74.26	gold quality
mouth mucosa	UBERON:0003729	74.21	gold quality
leukocyte	CL:0000738	74.04	gold quality
epithelium of esophagus	UBERON:0001976	74.04	gold quality
left testis	UBERON:0004533	74.01	gold quality
mononuclear cell	CL:0000842	73.94	gold quality
mammalian vulva	UBERON:0000997	73.93	gold quality
granulocyte	CL:0000094	73.92	gold quality
urethra	UBERON:0000057	73.87	gold quality
large intestine	UBERON:0000059	73.29	gold quality
upper lobe of lung	UBERON:0008948	73.06	gold quality
bone marrow cell	CL:0002092	72.93	gold quality
pancreatic ductal cell	CL:0002079	72.86	silver quality
colon	UBERON:0001155	72.80	gold quality
blood	UBERON:0000178	72.78	gold quality
upper lobe of left lung	UBERON:0008952	72.68	gold quality
substantia nigra pars compacta	UBERON:0001965	72.54	silver quality
superior surface of tongue	UBERON:0007371	72.31	gold quality
lateral nuclear group of thalamus	UBERON:0002736	71.95	silver quality
esophagus	UBERON:0001043	71.78	gold quality
urinary bladder	UBERON:0001255	71.65	gold quality
substantia nigra pars reticulata	UBERON:0001966	71.30	silver quality
caecum	UBERON:0001153	71.26	gold quality
skin of hip	UBERON:0001554	71.14	gold quality
gingiva	UBERON:0001828	70.90	gold quality
vermiform appendix	UBERON:0001154	70.83	gold quality
squamous epithelium	UBERON:0006914	70.83	silver quality
islet of Langerhans	UBERON:0000006	70.68	gold quality
body of stomach	UBERON:0001161	70.62	gold quality
saliva-secreting gland	UBERON:0001044	70.35	gold quality
cerebellar vermis	UBERON:0004720	70.08	silver quality
prefrontal cortex	UBERON:0000451	70.05	gold quality
stromal cell of endometrium	CL:0002255	69.94	gold quality
stomach	UBERON:0000945	69.79	gold quality
endometrium	UBERON:0001295	69.74	gold quality
body of tongue	UBERON:0011876	69.70	silver quality
tongue	UBERON:0001723	69.65	silver quality
pons	UBERON:0000988	69.55	silver quality
nipple	UBERON:0002030	69.40	silver quality
lung	UBERON:0002048	69.34	gold quality
adenohypophysis	UBERON:0002196	69.20	gold quality
lymph node	UBERON:0000029	69.05	gold quality
tonsil	UBERON:0002372	68.98	gold quality
right lobe of liver	UBERON:0001114	68.76	gold quality
right lung	UBERON:0002167	68.71	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	8.84

HPA expression

RNA tissue specificity: Tissue enhanced

showing 60 of 79 HPA tissues / cells by nTPM:

Tissue / cell	Axis	nTPM	Protein (IHC)
Small intestine	tissue	33.0	high
Duodenum	tissue	32.3	high
Frontal cortex	tissue	17.3
Gallbladder	tissue	17.1	high
Colon	tissue	16.4	high
Locus coeruleus	tissue	14.5
Bone marrow	tissue	14.0	not detected
Prostate	tissue	13.4	medium
Rectum	tissue	12.1	high
Urinary bladder	tissue	12.0	medium
Stomach 1	tissue	10.5	high
Postcentral gyrus	tissue	10.5
Esophagus	tissue	10.2	low
Skin 1	tissue	8.8	low
Testis	tissue	8.6	high
Cerebellum	tissue	8.3	not detected
Caudate putamen	tissue	8.3
Vagina	tissue	7.6	low
Cerebral cortex	tissue	7.2	not detected
Motor cortex	tissue	7.2
Lung	tissue	7.0	medium
Retrosplenial cortex	tissue	7.0
Prefrontal cortex	tissue	6.9
Retrosplenial and cingulate cortex	tissue	6.6
Hypothalamus	tissue	6.3
Insular cortex	tissue	5.9
Cervix	tissue	5.8	medium
Hippocampal formation	tissue	5.8
Hippocampus	tissue	5.6	not detected
Somatosensory cortex	tissue	5.6
Tonsil	tissue	5.5	low
Thymus	tissue	5.3
Pons	tissue	5.2
Entorhinal cortex	tissue	5.2
Substantia nigra	tissue	5.0
Occipital cortex	tissue	4.9
Appendix	tissue	4.6	high
Temporal cortex	tissue	4.5
Breast	tissue	4.4	low
Fallopian tube	tissue	4.4	not detected
Spinal cord	tissue	4.3
Periaqueductal gray	tissue	4.3
Nucleus accumbens	tissue	4.1
Amygdala	tissue	4.0
Septum	tissue	3.9
Pituitary gland	tissue	3.8
Medulla oblongata	tissue	3.7
Choroid plexus	tissue	3.1
Midbrain	tissue	3.1
Thalamus	tissue	3.0
Ventral forebrain	tissue	3.0
Lymph node	tissue	2.7	low
Basal ganglia	tissue	2.6	not detected
Superior colliculi	tissue	2.4
Parathyroid gland	tissue	2.3	medium
Spleen	tissue	2.3	not detected
Putamen	tissue	2.1
Smooth muscle	tissue	2.0	low
Placenta	tissue	2.0	not detected
Liver	tissue	1.8	low

Brain sub-regions (HPA Brain Atlas): detected in 191; highest nTPM — Vermis (13.8), Habenula (13.5), Flocculonodular lobe (13.0), Cerebellar cortex (12.5), Spinal trigeminal nucleus, interpolar (12.0).

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

Targeting CORO2A by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific).

showing 30 of 131 miRNAs:

miRNA	Max score	Avg score	miRNA target_count
HSA-MIR-5692A	100.00	74.40	6850
HSA-MIR-4795-3P	100.00	74.62	4024
HSA-MIR-7110-3P	100.00	73.18	2486
HSA-MIR-3163	100.00	77.23	8605
HSA-MIR-4692	100.00	67.32	2066
HSA-MIR-548C-3P	99.99	74.01	7587
HSA-MIR-4531	99.99	69.70	3181
HSA-MIR-150-5P	99.99	66.69	1976
HSA-MIR-3662	99.99	73.82	5684
HSA-MIR-34A-5P	99.99	71.21	1784
HSA-MIR-449A	99.99	71.05	1776
HSA-MIR-8068	99.98	73.85	2376
HSA-MIR-4775	99.98	75.00	6394
HSA-MIR-6778-3P	99.96	67.29	2693
HSA-MIR-4267	99.96	66.53	2368
HSA-MIR-9983-3P	99.94	71.48	3631
HSA-MIR-335-3P	99.93	73.36	4958
HSA-MIR-205-3P	99.92	69.92	3165
HSA-MIR-5680	99.91	69.83	3421
HSA-MIR-4753-3P	99.90	71.03	3786
HSA-MIR-548E-5P	99.89	72.73	4486
HSA-MIR-605-3P	99.88	69.22	1833
HSA-MIR-129-5P	99.88	70.26	3273
HSA-MIR-4779	99.86	66.50	1583
HSA-MIR-659-3P	99.85	70.69	1620
HSA-MIR-369-3P	99.85	70.52	2264
HSA-MIR-130B-5P	99.83	68.50	1888
HSA-MIR-374C-5P	99.80	72.06	2910
HSA-MIR-655-3P	99.80	72.19	2909
HSA-MIR-448	99.79	72.37	2103

Functional genomics

gnomAD constraint: pLI 3.83e-11, LOEUF 0.902, missense Z 1.44 — population loss-of-function intolerance (pLI ≥ 0.9 = LoF-intolerant; lower LOEUF = more constrained). gnomAD

Regional missense constraint (gnomAD RMC): no regional variation along ENST00000375077 — one region, missense o/e 0.89.

Literature-anchored findings (GeneRIF, showing 6)

• This protein is one of 10-12 associated proteins in the purified N-CoR complex. (PMID:12628926)
• Coronin 2A and cofilin regulate a subset of focal-adhesion-turnover events. (PMID:19654210)
• The candidate marker CORO2A rs1985859 and the putative marker FAM101A rs7955740 may be of value for the prediction of radiosensitivity to preoperative colorectal tumors. (PMID:23490283)
• increased expression of coronin 2A is associated with the malignant phenotype of human colon carcinoma. (PMID:26373535)
• The regulation of CORO2A through the deubiquitinating activity of USP19 affected the transcriptional repression activity of the retinoic acid receptor (RAR), suggesting that USP19 may be involved in the regulation of RAR-mediated adipogenesis. (PMID:27129179)
• Molecular Pathogenesis of the Coronin Family: CORO2A Facilitates Migration and Invasion Abilities in Oral Squamous Cell Carcinoma. (PMID:34884487)

Cross-species orthologs

6 orthologs

Organism	Symbol	Gene ID
danio_rerio	coro2aa	ENSDARG00000005210
danio_rerio	coro2ab	ENSDARG00000095969
mus_musculus	Coro2a	ENSMUSG00000028337
rattus_norvegicus	Coro2a	ENSRNOG00000008901
drosophila_melanogaster	coro	FBGN0265935
caenorhabditis_elegans		WBGENE00000768

Paralogs (6): CORO1A (ENSG00000102879), CORO2B (ENSG00000103647), CORO1C (ENSG00000110880), CORO6 (ENSG00000167549), CORO1B (ENSG00000172725), CORO7 (ENSG00000262246)

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
Macaca fascicularis	Q4R4J2	99.3%	Diamond
Pongo abelii	Q5NVK4	99.0%	Diamond
Xenopus tropicalis	A8WGE3	96.0%	Diamond
Xenopus laevis	Q6DJD8	96.0%	Diamond
Bos taurus	Q92176	95.4%	Diamond
Oryctolagus cuniculus	Q9XS70	91.2%	Diamond
Thermochaetoides thermophila DSM 1495	G0SA60	87.9%	Diamond
Chaetomium globosum CBS 148.51	Q2GSM6	87.9%	Diamond
Caenorhabditis briggsae	A8XJ40	74.0%	Diamond
Dictyostelium discoideum	Q54SD4	66.5%	Diamond
Schizosaccharomyces pombe 972h-	O13923	56.5%	Diamond
Saccharomyces cerevisiae S288C	Q06440	56.5%	Diamond
Encephalitozoon cuniculi GB-M1	Q8SRK1	55.9%	Diamond
Mycosarcoma maydis	Q4PCB8	53.3%	Diamond
Nematostella vectensis	A7RHG8	48.2%	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
MIR6854	ncRNA	102465514
TBC1D2	protein-coding	55357
GABBR2	protein-coding	9568
NANS	protein-coding	54187
TRIM14	protein-coding	9830
ANP32B	protein-coding	10541

Protein

Protein identifiers

Coronin-2A — Q92828 (reviewed: Q92828)

Alternative names: IR10, WD repeat-containing protein 2

All UniProt accessions (1): Q92828

UniProt curated annotations — full annotation on UniProt →

Subunit / interactions. Binds actin. Component of the N-Cor repressor complex, at least composed of NCOR1, NCOR2, HDAC3, TBL1X, TBL1R, CORO2A and GPS2.

Similarity. Belongs to the WD repeat coronin family.

RefSeq proteins (2): NP_003380, NP_438171* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR001680	WD40_rpt	Repeat
IPR015048	DUF1899	Domain
IPR015505	Coronin	Family
IPR015943	WD40/YVTN_repeat-like_dom_sf	Homologous_superfamily
IPR019775	WD40_repeat_CS	Conserved_site
IPR036322	WD40_repeat_dom_sf	Homologous_superfamily

Pfam: PF00400, PF08953, PF16300

UniProt features (15 total): repeat 7, sequence conflict 4, sequence variant 2, chain 1, coiled-coil region 1

Structure

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q92828-F1	85.12	0.75

Human Protein Atlas

Protein class: Predicted intracellular proteins

Protein evidence: Evidence at protein level

Subcellular location (HPA, imaging): cytosol; plasma membrane; basal body; vesicles

Antibody reliability (HPA): IH enhanced · IF approved

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: 210 (showing top): TAKEDA_TARGETS_OF_NUP98_HOXA9_FUSION_6HR_DN, YAATNRNNNYNATT_UNKNOWN, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_UP, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_UP, MYOD_01, GOBP_ACTIN_FILAMENT_ORGANIZATION, SCHAEFFER_PROSTATE_DEVELOPMENT_48HR_UP, CREIGHTON_ENDOCRINE_THERAPY_RESISTANCE_5, chr9q22, GOMF_ACTIN_BINDING, E12_Q6, TAKEDA_TARGETS_OF_NUP98_HOXA9_FUSION_16D_DN, RODRIGUES_DCC_TARGETS_DN, GOCC_APICAL_PART_OF_CELL, GOCC_TRANSCRIPTION_REPRESSOR_COMPLEX

GO Biological Process (2): actin filament organization (GO:0007015), intracellular signal transduction (GO:0035556)

GO Molecular Function (3): actin filament binding (GO:0051015), actin binding (GO:0003779), protein binding (GO:0005515)

GO Cellular Component (4): actin filament (GO:0005884), plasma membrane (GO:0005886), brush border (GO:0005903), transcription repressor complex (GO:0017053)

GO top-level categories

16 GO namespaces:

Category	Terms
actin cytoskeleton organization	1
supramolecular fiber organization	1
intracellular anatomical structure	1
signal transduction	1
actin binding	1
protein-containing complex binding	1
cytoskeletal protein binding	1
binding	1
actin cytoskeleton	1
polymeric cytoskeletal fiber	1
membrane	1
cell periphery	1
microvillus	1
apical part of cell	1
cluster of actin-based cell projections	1
transcription regulator complex	1

Experimentally-supported GO annotations

GO terms backed by direct experimental evidence (ECO experimental codes) — 1 of 9 annotations. The rest are phylogenetic / computational / electronic (IEA).

1 experimentally-supported GO terms:

GO term	NS	Evidence
transcription repressor complex	CC	direct assay

Protein interactions and networks

STRING

showing 15 of 898 interactions by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
CORO2A	COP1	Q8NHY2	730
CORO2A	NISCH	Q9Y2I1	539
CORO2A	WDR1	O75083	494
CORO2A	DET1	Q7L5Y6	385
CORO2A	RPL7L1	Q6DKI1	370
CORO2A	SDK1	Q7Z5N4	367
CORO2A	RFLNA	Q6ZTI6	361
CORO2A	NCOR1	O75376	346
CORO2A	CFL1	P23528	338
CORO2A	CFL2	Q9Y281	332
CORO2A	JUND	P17535	325
CORO2A	DDB1	Q16531	323
CORO2A	CUL4A	Q13619	299
CORO2A	A0A0A6YYL4	A0A0A6YYL4	293
CORO2A	TRMO	Q9BU70	285

IntAct

Human interaction partners of CORO2A in IntAct, one row per partner (best MIscore; records = supporting IntAct interaction records).

14 partners by confidence:

Partner	Interaction type	MIscore	Records
NR1H2	physical association	0.580	4
FXN	physical association	0.560	3
LITAF	physical association	0.560	3
BCLAF1	association	0.500	3
THAP4	physical association	0.400	1
AURKA	physical association	0.370	1
BUB1	physical association	0.370	1
DCC	physical association	0.370	1
DLC1	physical association	0.370	1
NRAS	physical association	0.370	1
RB1	physical association	0.370	1
SMAD2	physical association	0.370	1
YPEL5	association	0.350	1
RSPH1	physical association	0.000	1

BioGRID (97 interactions; top human partners by supporting records): NCOR1 (Affinity Capture-MS; 5 records), ANLN (Affinity Capture-MS; 3 records), CORO2B (Affinity Capture-MS; 3 records), BCLAF1 (Affinity Capture-MS; 2 records), CSN2 (Affinity Capture-MS; 2 records), NR1H2 (Affinity Capture-Western; 2 records), RGS3 (Affinity Capture-MS; 2 records), SLC5A8 (Affinity Capture-MS; 2 records), STK4 (Proximity Label-MS; 2 records), THAP4 (Affinity Capture-MS; 2 records), THRAP3 (Affinity Capture-MS; 2 records), ACTB (Cross-Linking-MS (XL-MS)), ACTG1 (Cross-Linking-MS (XL-MS)), AMBRA1 (Affinity Capture-MS), ARMC8 (Affinity Capture-MS)

Protein complexes (CORUM) (2)

Experimentally-characterized complexes this protein is a subunit of (★ = the complex contains a known drug target).

2 complexes by size:

Complex	Subunits	Members
★ KAISO-NCOR complex	10	GPS2, KIF11, NCOR1, TBL1XR1, ZBTB33, CORO2A, HDAC3, KDM4A, TBL1X, TRIM33
★ NCOR complex	6	CORO2A, GPS2, HDAC3, NCOR1, TBL1X, TBL1XR1

Disease & clinical

Genetic variants

Variant evidence for CORO2A: 117 ClinVar records (0 pathogenic / likely pathogenic); 2 GWAS associations.

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	93
Likely benign	5
Benign	0

SpliceAI

Top 10 splice-impact sites by Δscore (adjacent positions with the same effect merged into one range; 40 predictions of 917):

Position(s)	Effect	Δscore	Sites
9:98124906–98124907	acceptor_loss	1.0000	6
9:98128605–98128606	donor_loss	1.0000	5
9:98128720–98128721	acceptor_loss	1.0000	5
9:98129792–98129793	donor_loss	1.0000	5
9:98129891	acceptor_gain	1.0000
9:98129891–98129892	acceptor_loss	1.0000	5
9:98130935	donor_gain	1.0000
9:98130957	donor_gain	1.0000
9:98131060–98131061	acceptor_loss	1.0000	6
9:98133036–98133037	donor_loss	1.0000	5

AlphaMissense

1,097 missense substitutions predicted likely pathogenic (of 3,453 scored), across 296 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
D367	8	0.969	0.991
D279	8	0.968	0.983
D104	8	0.967	0.996
H81	8	0.961	0.989
D154	8	0.934	0.985
H131	8	0.928	0.979
D201	8	0.923	0.988
D87	8	0.916	0.968
D268	8	0.914	0.974
F60	8	0.904	0.992
D292	8	0.900	0.977
H141	8	0.893	0.993
H14	8	0.883	0.991
D37	8	0.860	0.967
D281	8	0.794	0.937
H179	8	0.790	0.962
F340	8	0.782	0.980
W140	7	0.987	0.999
W90	7	0.986	0.999
F12	7	0.985	0.995

HPA cancer prognostics

RNA cancer specificity: Low cancer specificity

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

1 prognostic cancer types:

Cancer	Prognostic	p-value
Pancreatic Adenocarcinoma (TCGA)	unfavorable	0.000447

Disease associations

OMIM: gene MIM:602159 | disease phenotypes:

GWAS associations

2 associations:

Study	Trait	p-value
GCST006168_5	Pulse pressure x alcohol consumption interaction (2df test)	1e-9
GCST008514_15	Peginterferon alfa-2a treatment response in chronic hepatitis B infection	5e-6

EFO canonical traits (from GWAS)

3 canonical traits:

EFO ID	Trait name
EFO:0004329	alcohol drinking
EFO:0005763	pulse pressure measurement
EFO:0010103	response to peginterferon alfa-2a

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (CPIC guideline: no)

CTD chemical–gene interactions

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

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	increases methylation, affects cotreatment, increases expression, affects expression	9
trichostatin A	affects cotreatment, increases expression	3
sodium arsenite	decreases expression, affects cotreatment, increases abundance	3
Benzo(a)pyrene	decreases expression, increases methylation	3
Tretinoin	increases expression	3
entinostat	increases expression, affects cotreatment	2
Vorinostat	affects cotreatment, increases expression	2
Panobinostat	affects cotreatment, increases expression	2
Air Pollutants	decreases expression, affects expression, increases abundance	2
Phenylmercuric Acetate	affects cotreatment, increases expression	2
aristolochic acid I	decreases expression	1
pirinixic acid	affects binding, decreases expression, increases activity	1
deoxynivalenol	decreases expression	1
beta-lapachone	increases expression	1
tris(1,3-dichloro-2-propyl)phosphate	affects expression	1
manganese chloride	decreases expression, increases abundance, affects cotreatment	1
benzo(e)pyrene	increases methylation	1
S-(1,2-dichlorovinyl)cysteine	affects cotreatment, decreases expression, affects response to substance, increases expression	1
di-n-butylphosphoric acid	affects expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	affects cotreatment, increases expression	1
nutlin 3	affects cotreatment, increases expression	1
abrine	decreases expression	1
dorsomorphin	affects cotreatment, increases expression	1
bisphenol S	affects cotreatment, increases expression	1
jinfukang	affects cotreatment, increases expression	1
Resveratrol	affects cotreatment, decreases expression	1
Temozolomide	increases expression	1
Arsenic Trioxide	decreases expression	1
Amiodarone	increases expression	1
Arsenic	affects cotreatment, decreases expression, increases abundance	1

Clinical trials (associated diseases)

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

5 trials:

NCT	Phase	Status	Title
NCT03600649	Phase 1	UNKNOWN	Clinical Trial of SP-2577 (Seclidemstat) in Patients With Relapsed or Refractory Ewing or Ewing-related Sarcomas
NCT05266196	Phase 1/2	UNKNOWN	A Rollover Protocol to Allow for Continued Access to the LSD1 Inhibitor Seclidemstat (SP-2577)
NCT06239272	Phase 1/2	RECRUITING	NRSTS2021, A Risk Adapted Study Evaluating Maintenance Pazopanib, Limited Margin, Dose-Escalated Radiation Therapy and Selinexor in Non-Rhabdomyosarcoma Soft Tissue Sarcoma (NRSTS)
NCT06625190	Phase 1/2	RECRUITING	Alpha/Beta T and B Cell Depletion With Zoledronic Acid for Solid Tumors
NCT06244420	Not specified	COMPLETED	Malignant Myoepithelioma of Bone and Soft Tissues: Diagnostic Imaging and Histology in Relation to Prognosis