CORO2A

gene
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Also known as IR10WDR2

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
  • MANE Select transcript: NM_052820

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:2255
Approved symbolCORO2A
Namecoronin 2A
Location9q22.33
Locus typegene with protein product
StatusApproved
AliasesIR10, WDR2
Ensembl geneENSG00000106789
Ensembl biotypeprotein_coding
OMIM602159
Entrez7464

Gene structure

Transcript identifiers

Ensembl transcripts: 15 — 15 protein_coding

ENST00000343933, ENST00000375077, ENST00000871381, ENST00000871382, ENST00000871383, ENST00000871384, ENST00000871385, ENST00000871386, ENST00000871387, ENST00000930884, ENST00000930885, ENST00000930886, ENST00000948660, ENST00000948661, ENST00000948662

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

CCDS: CCDS6735

Canonical transcript exons

ENST00000375077 — 12 exons

ExonStartEnd
ENSE000007151949812654998126823
ENSE000007151989812860798128719
ENSE000007152009812979498129890
ENSE000007152029813095598131059
ENSE000007152049813218598132301
ENSE000007152069813303898133217
ENSE000007152099813480698134955
ENSE000007152129813757298137688
ENSE000012819579812817098128260
ENSE000013535179819255998192637
ENSE000014656849812097598124905
ENSE000014656879815746098157660

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.

FANTOM5 promoters (2 alternative TSS)

Promoter IDTPM avgSamples expressed
1016732.3409802
1016700.00683

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
jejunal mucosaUBERON:000039989.83gold quality
duodenumUBERON:000211488.71gold quality
mucosa of transverse colonUBERON:000499187.32gold quality
gall bladderUBERON:000211086.51gold quality
lower esophagus mucosaUBERON:003583484.52gold quality
penisUBERON:000098983.97gold quality
bronchial epithelial cellCL:000232883.79gold quality
esophagus mucosaUBERON:000246982.91gold quality
colonic mucosaUBERON:000031782.89gold quality
rectumUBERON:000105282.73gold quality
dorsal root ganglionUBERON:000004482.35gold quality
pharyngeal mucosaUBERON:000035581.72gold quality
jejunumUBERON:000211581.63gold quality
small intestineUBERON:000210881.59gold quality
small intestine Peyer’s patchUBERON:000345481.28gold quality
mucosa of sigmoid colonUBERON:000499380.50gold quality
olfactory segment of nasal mucosaUBERON:000538680.48gold quality
mucosa of paranasal sinusUBERON:000503079.77gold quality
oocyteCL:000002379.54gold quality
bone marrowUBERON:000237179.27gold quality
transverse colonUBERON:000115779.21gold quality
lower lobe of lungUBERON:000894979.15gold quality
ileal mucosaUBERON:000033178.66gold quality
buccal mucosa cellCL:000233678.53silver quality
esophagus squamous epitheliumUBERON:000692078.51gold quality
trabecular bone tissueUBERON:000248378.28gold quality
epithelium of bronchusUBERON:000203178.09gold quality
bronchusUBERON:000218577.91gold quality
cerebellar hemisphereUBERON:000224577.56gold quality
cerebellar cortexUBERON:000212977.55gold quality

Single-cell (SCXA)

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

ExperimentMarker?Max mean expression
E-ANND-3yes8.84

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

131 targeting CORO2A, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-5692A100.0074.406850
HSA-MIR-4795-3P100.0074.624024
HSA-MIR-7110-3P100.0073.182486
HSA-MIR-3163100.0077.238605
HSA-MIR-4692100.0067.322066
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-453199.9969.703181
HSA-MIR-150-5P99.9966.691976
HSA-MIR-366299.9973.825684
HSA-MIR-34A-5P99.9971.211784
HSA-MIR-449A99.9971.051776
HSA-MIR-806899.9873.852376
HSA-MIR-477599.9875.006394
HSA-MIR-6778-3P99.9667.292693
HSA-MIR-426799.9666.532368
HSA-MIR-9983-3P99.9471.483631
HSA-MIR-335-3P99.9373.364958
HSA-MIR-205-3P99.9269.923165
HSA-MIR-568099.9169.833421
HSA-MIR-4753-3P99.9071.033786
HSA-MIR-548E-5P99.8972.734486
HSA-MIR-605-3P99.8869.221833
HSA-MIR-129-5P99.8870.263273
HSA-MIR-477999.8666.501583
HSA-MIR-659-3P99.8570.691620
HSA-MIR-369-3P99.8570.522264
HSA-MIR-130B-5P99.8368.501888
HSA-MIR-374C-5P99.8072.062910
HSA-MIR-655-3P99.8072.192909
HSA-MIR-44899.7972.372103

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

OrganismSymbolGene ID
danio_reriocoro2aaENSDARG00000005210
danio_reriocoro2abENSDARG00000095969
mus_musculusCoro2aENSMUSG00000028337
rattus_norvegicusCoro2aENSRNOG00000008901
drosophila_melanogastercoroFBGN0265935
caenorhabditis_elegansWBGENE00000768

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

Protein

Protein identifiers

Coronin-2AQ92828 (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)

IDNameType
IPR001680WD40_rptRepeat
IPR015048DUF1899Domain
IPR015505CoroninFamily
IPR015943WD40/YVTN_repeat-like_dom_sfHomologous_superfamily
IPR019775WD40_repeat_CSConserved_site
IPR036322WD40_repeat_dom_sfHomologous_superfamily

Pfam: PF00400, PF08953, PF16300

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

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q92828-F185.120.75

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

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 (1): 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 (2): brush border (GO:0005903), transcription repressor complex (GO:0017053)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
intracellular anatomical structure1
signal transduction1
actin binding1
protein-containing complex binding1
cytoskeletal protein binding1
binding1
microvillus1
apical part of cell1
cluster of actin-based cell projections1
transcription regulator complex1

Protein interactions and networks

STRING

1818 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
CORO2ACOP1Q8NHY2750
CORO2AWDR1O75083567
CORO2ASOD2P04179500
CORO2AACTBP02570498
CORO2ANISCHQ9Y2I1480
CORO2AGPS2Q13227479
CORO2APOTEFA5A3E0477
CORO2AHDAC3O15379447
CORO2ATBL1XR1Q9BZK7417
CORO2ARFLNAQ6ZTI6414
CORO2AITGB6P18564392
CORO2ANCOR1O75376391
CORO2ADET1Q7L5Y6382
CORO2ACFL2Q9Y281379
CORO2ATAB2Q9NYJ8371

IntAct

84 interactions, top by confidence:

ABTypeScore
SMARCB1ARID1Apsi-mi:“MI:0914”(association)0.860
CORO2ANR1H2psi-mi:“MI:0915”(physical association)0.580
NR1H2CORO2Apsi-mi:“MI:0915”(physical association)0.580
FXNCORO2Apsi-mi:“MI:0915”(physical association)0.560
CORO2ALITAFpsi-mi:“MI:0915”(physical association)0.560
NEURL4APBB1psi-mi:“MI:0914”(association)0.530
CSN2PPP3CCpsi-mi:“MI:0914”(association)0.530
CSN2CRYBB3psi-mi:“MI:0914”(association)0.530
DBN1SVILpsi-mi:“MI:0914”(association)0.530
SSH1GSNpsi-mi:“MI:0914”(association)0.530
BCLAF1CORO2Apsi-mi:“MI:0915”(physical association)0.500
CORO2ABCLAF1psi-mi:“MI:0914”(association)0.500
THRAP3HNRNPCpsi-mi:“MI:0914”(association)0.480
CORO2ABCLAF1psi-mi:“MI:0915”(physical association)0.400
THAP4CORO2Apsi-mi:“MI:0915”(physical association)0.400
AURKACORO2Apsi-mi:“MI:0915”(physical association)0.370
CORO2ABUB1psi-mi:“MI:0915”(physical association)0.370
CORO2ADCCpsi-mi:“MI:0915”(physical association)0.370
DLC1CORO2Apsi-mi:“MI:0915”(physical association)0.370
NRASCORO2Apsi-mi:“MI:0915”(physical association)0.370
CORO2ARB1psi-mi:“MI:0915”(physical association)0.370
SMAD2CORO2Apsi-mi:“MI:0915”(physical association)0.370
Dctn3psi-mi:“MI:0914”(association)0.350
ANLNPLEKHG3psi-mi:“MI:0914”(association)0.350

BioGRID (95): CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS), CORO2A (Affinity Capture-MS)

ESM2 similar proteins: A0A1W2PQ27, A0A1W2PQ64, A0A1W2PQC6, A0A1W2PQD8, A0A1W2PQJ5, A0A1W2PR75, A2AV36, A4QN59, A6QQV6, D4A1F2, F1RA39, G5E8F4, J9SQF3, O00142, O42868, O55239, O95050, O95932, O97972, P0CR76, P0CR77, P10938, P40261, P40936, P53538, Q01841, Q22453, Q32LP9, Q4R7D0, Q566Y1, Q5M9G7, Q5RFR7, Q5U4E8, Q5XG58, Q62160, Q6C195, Q6CQ61, Q6DE00, Q6FMU7, Q6PCI6

Diamond homologs: A1CF18, A6ZPA9, A7RHG8, A8IR43, B0W517, B0XAF3, B3MJV8, B3N534, B3RQN1, B4GT01, B4HWV6, B4JPT9, B4KKN1, B4LS78, B4MU54, B4P116, B4Q9T6, B5DG67, B6K1G6, B6QC06, B7PY76, C4JZS6, C4R6H3, D1ZEM6, D5GBI7, G0SA60, O14021, O35142, O35828, O48847, O54929, O55029, P40066, P41318, P53699, P57737, P61480, Q04305, Q05B17, Q0D0X6

SIGNOR signaling

0 interactions.

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 86 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:

PathwayPartnersFoldFDR
Signaling by ALK fusions and activated point mutants515.3×6e-03

GO biological processes:

GO termPartnersFoldFDR
actin filament organization610.0×4e-03
actin cytoskeleton organization88.9×2e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance93
Likely benign5
Benign0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1750 predictions. Top by Δscore:

VariantEffectΔscore
9:98124903:CAA:Cacceptor_gain1.0000
9:98124904:AAC:Aacceptor_loss1.0000
9:98124906:C:CCacceptor_gain1.0000
9:98124906:C:CGacceptor_loss1.0000
9:98124907:T:Cacceptor_loss1.0000
9:98128257:CTGA:Cacceptor_gain1.0000
9:98128261:C:CCacceptor_gain1.0000
9:98128601:CCTTA:Cdonor_loss1.0000
9:98128603:TTA:Tdonor_loss1.0000
9:98128604:TA:Tdonor_loss1.0000
9:98128605:A:ACdonor_gain1.0000
9:98128605:AC:Adonor_gain1.0000
9:98128606:C:Adonor_loss1.0000
9:98128606:C:CCdonor_gain1.0000
9:98128606:CC:Cdonor_gain1.0000
9:98128606:CCCG:Cdonor_gain1.0000
9:98128717:CAC:Cacceptor_gain1.0000
9:98128718:ACC:Aacceptor_loss1.0000
9:98128720:C:CCacceptor_gain1.0000
9:98128720:CTGA:Cacceptor_loss1.0000
9:98128721:T:Gacceptor_loss1.0000
9:98129790:TTACC:Tdonor_loss1.0000
9:98129791:T:TGdonor_loss1.0000
9:98129792:A:ACdonor_gain1.0000
9:98129792:ACC:Adonor_loss1.0000
9:98129793:C:CCdonor_gain1.0000
9:98129793:C:Tdonor_loss1.0000
9:98129793:CCGAT:Cdonor_gain1.0000
9:98129887:CTCC:Cacceptor_gain1.0000
9:98129888:TCC:Tacceptor_gain1.0000

AlphaMissense

3453 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
9:98128671:C:GR339P0.999
9:98134824:A:CS150R0.999
9:98134824:A:TS150R0.999
9:98134826:T:GS150R0.999
9:98134856:A:GW140R0.999
9:98134856:A:TW140R0.999
9:98137622:A:GW90R0.999
9:98137622:A:TW90R0.999
9:98133072:C:GR205P0.998
9:98137594:G:TA99D0.998
9:98157515:G:TA49E0.998
9:98157617:A:TV15D0.998
9:98128191:A:GW384R0.997
9:98128191:A:TW384R0.997
9:98128236:A:CY369D0.997
9:98128617:A:TV357E0.997
9:98128666:A:CY341D0.997
9:98132207:C:GR248P0.997
9:98133208:A:GW160R0.997
9:98133208:A:TW160R0.997
9:98134946:A:GW110R0.997
9:98134946:A:TW110R0.997
9:98137636:A:TV85D0.997
9:98157476:A:TV62D0.997
9:98157516:C:GA49P0.997
9:98130969:A:CY286D0.996
9:98137580:C:GD104H0.996
9:98137586:A:GS102P0.996
9:98137592:A:GS100P0.996
9:98157611:C:TG17D0.996

dbSNP variants (sampled 300 via entrez): RS1000063583 (9:98134364 C>G,T), RS1000065143 (9:98181579 T>C), RS1000073095 (9:98166250 C>T), RS1000142073 (9:98141132 A>G), RS1000147714 (9:98166626 A>T), RS1000150208 (9:98133895 T>C), RS1000191362 (9:98125288 G>A), RS1000193106 (9:98189950 T>G), RS1000224380 (9:98190194 C>A,T), RS1000302771 (9:98143256 C>T), RS1000346397 (9:98188623 G>A), RS1000351424 (9:98172211 C>G), RS1000355679 (9:98143709 T>C), RS1000366950 (9:98144049 T>C), RS1000457815 (9:98137408 C>A,G,T)

Disease associations

OMIM: gene MIM:602159 | disease phenotypes:

GenCC curated gene-disease

Mondo (1): myoepithelial tumor (MONDO:0002380)

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

2 associations (top):

StudyTraitp-value
GCST006168_7Pulse pressure x alcohol consumption interaction (2df test)1.000000e-09
GCST008514_15Peginterferon alfa-2a treatment response in chronic hepatitis B infection5.000000e-06

EFO canonical traits (3, from GWAS)

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

MeSH disease descriptors (1)

DescriptorNameTree numbers
D009208MyoepitheliomaC04.557.435.585

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
Valproic Acidincreases expression, affects expression, increases methylation, affects cotreatment9
trichostatin Aincreases expression, affects cotreatment3
sodium arsenitedecreases expression, affects cotreatment, increases abundance3
Benzo(a)pyrenedecreases expression, increases methylation3
Tretinoinincreases expression3
entinostatincreases expression, affects cotreatment2
Vorinostataffects cotreatment, increases expression2
Panobinostataffects cotreatment, increases expression2
Air Pollutantsdecreases expression, affects expression, increases abundance2
Phenylmercuric Acetateaffects cotreatment, increases expression2
aristolochic acid Idecreases expression1
pirinixic acidincreases activity, affects binding, decreases expression1
deoxynivalenoldecreases expression1
beta-lapachoneincreases expression1
tris(1,3-dichloro-2-propyl)phosphateaffects expression1
manganese chlorideaffects cotreatment, decreases expression, increases abundance1
benzo(e)pyreneincreases methylation1
S-(1,2-dichlorovinyl)cysteineaffects response to substance, increases expression, affects cotreatment, decreases expression1
di-n-butylphosphoric acidaffects expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, increases expression1
nutlin 3affects cotreatment, increases expression1
abrinedecreases expression1
dorsomorphinaffects cotreatment, increases expression1
bisphenol Saffects cotreatment, increases expression1
jinfukangaffects cotreatment, increases expression1
Resveratrolaffects cotreatment, decreases expression1
Temozolomideincreases expression1
Arsenic Trioxidedecreases expression1
Amiodaroneincreases expression1
Arsenicaffects cotreatment, decreases expression, increases abundance1

Clinical trials (associated diseases)

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

TrialPhaseStatusTitle
NCT03600649PHASE1UNKNOWNClinical Trial of SP-2577 (Seclidemstat) in Patients With Relapsed or Refractory Ewing or Ewing-related Sarcomas
NCT05266196PHASE1/PHASE2UNKNOWNA Rollover Protocol to Allow for Continued Access to the LSD1 Inhibitor Seclidemstat (SP-2577)
NCT06239272PHASE1/PHASE2RECRUITINGNRSTS2021, A Risk Adapted Study Evaluating Maintenance Pazopanib, Limited Margin, Dose-Escalated Radiation Therapy and Selinexor in Non-Rhabdomyosarcoma Soft Tissue Sarcoma (NRSTS)
NCT06625190PHASE1/PHASE2RECRUITINGAlpha/Beta T and B Cell Depletion With Zoledronic Acid for Solid Tumors
NCT06244420Not specifiedCOMPLETEDMalignant Myoepithelioma of Bone and Soft Tissues: Diagnostic Imaging and Histology in Relation to Prognosis
  • Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): myoepithelial tumor