CCND3 (G1/S-specific cyclin-D3) variants and mutations
CCND3 (also known as G1/S-specific cyclin-D3) is a human protein-coding gene encoding a g1/S-specific cyclin-D3 protein. It supports cell-cycle entry by activating CDK4 and CDK6 and has particular importance in lymphoid-cell proliferation. Somatic mutations and rearrangements can increase its stability or expression and contribute to B-cell malignancies. This analysis covers 772 CCND3 variants and mutations. Of these, 59% have computational variant effect predictions. Disease context includes neurodegenerative disease, Burkitt lymphoma, and Abnormality of the skeletal system. Example CCND3 variants include E2G, L3V, and C5G.
Variant analysis overview
- Gene: CCND3
- Protein: G1/S-specific cyclin-D3
- UniProt accession: P30281
- Organism: Homo sapiens
- Variants analyzed: 772
- Variant scope: all variants
- Completed: 2026-08-19
Variant and mutation evidence
- Variant composition: 572 unspecified-consequence records; 1 stop retained variant; 2 stop lost; 55 synonymous variants; 108 missense variants; 3 in-frame deletions; 18 frameshift variants; 9 stop-gained variants; 2 in-frame insertions; 2 splice-region variants
- Prediction scores: 458 variants have prediction scores (59% of the analyzed set).
Clinical, disease, and population context
- Disease context: 25 disease associations are represented. Top associations: neurodegenerative disease, Burkitt lymphoma, Abnormality of the skeletal system, diffuse large B-cell lymphoma, T-cell acute lymphoblastic leukemia, breast ductal adenocarcinoma, bile duct carcinoma, ovarian endometrioid adenocarcinoma with squamous differentiation, hemangioblastoma, lymphoid neoplasm, carcinoma of liver and intrahepatic biliary tract, esophageal adenocarcinoma.
Protein structure and variant hotspots
- Protein features: 1 domains; 3 post-translational modification sites.
- Structural context: 202 variants have structural context.
- PTM context: 13 variants overlap post-translational modification sites.
Data sources
Evidence in this analysis draws on EBI Proteins Variation, UniProt, gnomAD v4, EuropePMC, 3D Hotspot Analysis, Interaction Network Analysis, Protein Data Bank, AlphaFold DB, gnomAD constraint, Open Targets, MaveDB, LitVar.
Notable CCND3 variants
Examples include E2G, L3V, C5G, C5S, E7A, E7D, E7K, G8D. Listed records include available protein-change notation, database identifiers, clinical classifications, computational predictions, population evidence, experimental measurements, and disease context.
- E2G (p.Glu2Gly), Ensembl rs2127395442
- L3V (p.Leu3Val), TOPMed rs746833245, gnomAD rs746833245, REVEL 0.20, CADD 23.90
- C5G (p.Cys5Gly), Ensembl rs2127395422
- C5S (p.Cys5Ser), gnomAD rs1414261126
- E7A (p.Glu7Ala), gnomAD rs1435439046, REVEL 0.16, CADD 29.00
- E7D (p.Glu7Asp), gnomAD rs1353591902, REVEL 0.12, CADD 24.70
- E7K (p.Glu7Lys), NCI-TCGA Cosmic COSV6591, REVEL 0.26, CADD 31.00, Variant assessed as somatic; moderate impact.
- G8D (p.Gly8Asp), cosmic curated COSV65912, 1000Genomes rs116713943, ExAC rs116713943, TOPMed rs116713943, REVEL 0.03, CADD 19.30
- T9I (p.Thr9Ile), Ensembl rs2127395399
- T9P (p.Thr9Pro), Ensembl rs2127395400
- R10L (p.Arg10Leu), cosmic curated COSV65912, gnomAD rs1431598533, REVEL 0.06, CADD 22.70
- A12V (p.Ala12Val), Ensembl rs2127395379, REVEL 0.10, CADD 18.50
- P13L (p.Pro13Leu), Ensembl rs917248590, CADD 19.70
- P13S (p.Pro13Ser), ExAC rs768238448, TOPMed rs768238448, gnomAD rs768238448, CADD 19.80
- P13T (p.Pro13Thr), ExAC rs768238448, TOPMed rs768238448, gnomAD rs768238448, CADD 19.40
- R14G (p.Arg14Gly), ExAC rs762507772, TOPMed rs762507772, gnomAD rs762507772, REVEL 0.08, CADD 30.00
- R14Q (p.Arg14Gln), gnomAD rs1373858958, REVEL 0.09, CADD 29.60
- R14W (p.Arg14Trp), cosmic curated COSV65912, ExAC rs762507772, TOPMed rs762507772, gnomAD rs762507772, REVEL 0.18, CADD 32.00
- A15P (p.Ala15Pro), TOPMed rs993120161, gnomAD rs993120161, REVEL 0.17, CADD 28.70
- A15T (p.Ala15Thr), TOPMed rs993120161, gnomAD rs993120161, REVEL 0.08, CADD 28.30
- A15V (p.Ala15Val), Ensembl rs2127395346, REVEL 0.20, CADD 31.00
- P17L (p.Pro17Leu), TOPMed rs1254723551, gnomAD rs1254723551, REVEL 0.04, CADD 19.20
- P17R (p.Pro17Arg), TOPMed rs1254723551, gnomAD rs1254723551, REVEL 0.04, CADD 17.60
- P17S (p.Pro17Ser), ExAC rs769785626, gnomAD rs769785626, REVEL 0.05, CADD 17.60, Uncertain significance, not specified
- D18N (p.Asp18Asn), rs1430025445, ClinGen CA364098150, cosmic curated COSV65913, ClinVar RCV004113642, REVEL 0.18, CADD 29.30, Uncertain significance, not specified
- P19L (p.Pro19Leu), gnomAD rs956471154, REVEL 0.07, CADD 24.80
- P19R (p.Pro19Arg), gnomAD rs956471154, REVEL 0.06, CADD 23.20
- R20G (p.Arg20Gly), NCI-TCGA TCGA novel, Variant assessed as somatic; high impact.
- R20L (p.Arg20Leu), TOPMed rs1202872573, gnomAD rs1202872573, REVEL 0.02, CADD 17.60
- R20P (p.Arg20Pro), TOPMed rs1202872573, gnomAD rs1202872573, REVEL 0.08, CADD 18.50
- R20Q (p.Arg20Gln), TOPMed rs1202872573, gnomAD rs1202872573, REVEL 0.02, CADD 16.50
- L22R (p.Leu22Arg), ExAC rs746832372, gnomAD rs746832372, REVEL 0.24, CADD 29.40
- G23R (p.Gly23Arg), Ensembl rs1191441347, REVEL 0.09, CADD 20.60
- G23W (p.Gly23Trp), Ensembl rs1191441347, REVEL 0.11, CADD 23.00
- D24E (p.Asp24Glu), gnomAD rs1290350673, REVEL 0.11, CADD 23.70
- D24N (p.Asp24Asn), TOPMed rs1422818754, REVEL 0.10, CADD 24.40
- D24Y (p.Asp24Tyr), TOPMed rs1422818754
- Q25* (p.Gln25Ter), TOPMed rs1410504471, gnomAD rs1410504471, CADD 36.00
- Q25E (p.Gln25Glu), TOPMed rs1410504471, gnomAD rs1410504471
- Q25R (p.Gln25Arg), gnomAD rs1374056626, REVEL 0.05, CADD 22.00
- R26H (p.Arg26His), Ensembl rs867977624, REVEL 0.31, CADD 32.00
- R26L (p.Arg26Leu), Ensembl rs867977624, REVEL 0.39, CADD 31.00
- V27A (p.Val27Ala), NCI-TCGA TCGA novel, Variant assessed as somatic; moderate impact.
- V27I (p.Val27Ile), Ensembl rs2127395266
- S30G (p.Ser30Gly), Ensembl rs2127395259
- S30R (p.Ser30Arg), gnomAD rs1192804534, REVEL 0.03, CADD 19.50
- L31Q (p.Leu31Gln), gnomAD rs1439768511, REVEL 0.43, CADD 32.00
- R33C (p.Arg33Cys), cosmic curated COSV65913, ExAC rs778979671, TOPMed rs778979671, gnomAD rs778979671, REVEL 0.11, CADD 27.70, Uncertain significance
- R33G (p.Arg33Gly), rs778979671, ClinGen CA3804401, ClinVar RCV004308806, ExAC rs778979671, REVEL 0.06, CADD 22.40, Uncertain significance, not specified
- R33H (p.Arg33His), ExAC rs755426354, TOPMed rs755426354, gnomAD rs755426354, REVEL 0.07, CADD 23.70
- R33L (p.Arg33Leu), ExAC rs755426354, TOPMed rs755426354, gnomAD rs755426354, REVEL 0.07, CADD 22.10
- L34Q (p.Leu34Gln), TOPMed rs1341839947, gnomAD rs1341839947, REVEL 0.06, CADD 22.80
- E36K (p.Glu36Lys), Ensembl rs2127395216
- R37C (p.Arg37Cys), Ensembl rs2127395212
- R37H (p.Arg37His), Ensembl rs2127395207, REVEL 0.09, CADD 25.70
- Y38F (p.Tyr38Phe), TOPMed rs1472629592, gnomAD rs1472629592, REVEL 0.11, CADD 23.10
- Y38H (p.Tyr38His), gnomAD rs1160817384, REVEL 0.22, CADD 31.00
- V39I (p.Val39Ile), rs1006519914, cosmic curated COSV10468, TOPMed rs1006519914, gnomAD rs1006519914, REVEL 0.03, CADD 19.30, Variant assessed as somatic; moderate impact.
- P40L (p.Pro40Leu), Ensembl rs2127395182
- P40S (p.Pro40Ser), ExAC rs761079148, gnomAD rs761079148, REVEL 0.38, CADD 28.80
- R41L (p.Arg41Leu), Ensembl rs2127395173
- A42P (p.Ala42Pro), gnomAD rs1213438578
- A42T (p.Ala42Thr), gnomAD rs1213438578, REVEL 0.01, CADD 18.20
- Y44N (p.Tyr44Asn), TOPMed rs1776020063
- F45L (p.Phe45Leu), ExAC rs762696595, TOPMed rs762696595, gnomAD rs762696595, REVEL 0.17, CADD 28.60
- Q46* (p.Gln46Ter), cosmic curated COSV65912, gnomAD rs1270249284
- Q46K (p.Gln46Lys), gnomAD rs1270249284, REVEL 0.13, CADD 20.40
- C47Y (p.Cys47Tyr), Ensembl rs998134479
- V48E (p.Val48Glu), Ensembl rs1582089832
- V48M (p.Val48Met), Ensembl rs2127395135
- Q49* (p.Gln49Ter), Ensembl rs2127395126, CADD 38.00
- R50G (p.Arg50Gly), TOPMed rs1254654753, gnomAD rs1254654753, REVEL 0.15, CADD 22.90
- R50Q (p.Arg50Gln), TOPMed rs1776018567, REVEL 0.04, CADD 22.60
- R50W (p.Arg50Trp), TOPMed rs1254654753, gnomAD rs1254654753, REVEL 0.19, CADD 25.10
- E51D (p.Glu51Asp), Ensembl rs1776017907, REVEL 0.09, CADD 18.60
- E51G (p.Glu51Gly), TOPMed rs1259065453, gnomAD rs1259065453, REVEL 0.21, CADD 32.00
- E51K (p.Glu51Lys), ESP rs376321266, TOPMed rs376321266, gnomAD rs376321266, REVEL 0.21, CADD 31.00, Uncertain significance, not specified
- E51Q (p.Glu51Gln), ESP rs376321266, TOPMed rs376321266, gnomAD rs376321266, REVEL 0.19, CADD 28.00, Uncertain significance
- I52M (p.Ile52Met), cosmic curated COSV65913, Ensembl rs1776017760
- P54S (p.Pro54Ser), gnomAD rs1776017471, REVEL 0.34, CADD 31.00
- H55Y (p.His55Tyr), TOPMed rs1776017222, gnomAD rs1776017222, REVEL 0.07, CADD 21.20
- M56I (p.Met56Ile), ExAC rs764873715, gnomAD rs764873715, REVEL 0.43, CADD 27.40
- R57L (p.Arg57Leu), ESP rs375385226, ExAC rs375385226, TOPMed rs375385226, gnomAD rs375385226
- R57Q (p.Arg57Gln), ESP rs375385226, ExAC rs375385226, TOPMed rs375385226, gnomAD rs375385226
- R57W (p.Arg57Trp), Ensembl rs2127395096, REVEL 0.56, CADD 32.00
- M59I (p.Met59Ile), TOPMed rs1776016258, REVEL 0.07, CADD 23.50
- M59V (p.Met59Val), ExAC rs776692321, gnomAD rs776692321, REVEL 0.04, CADD 23.40
- Y62N (p.Tyr62Asn), TOPMed rs1215975688, gnomAD rs1215975688, REVEL 0.12, CADD 22.90
- W63C (p.Trp63Cys), Ensembl rs1036879059
- W63R (p.Trp63Arg), TOPMed rs1343937602, gnomAD rs1343937602, REVEL 0.38, CADD 33.00
- M64L (p.Met64Leu), TOPMed rs1776015306
- L65V (p.Leu65Val), Ensembl rs1582089687, REVEL 0.14, CADD 25.50
- V67L (p.Val67Leu), Ensembl rs2127394019
- E69K (p.Glu69Lys), ESP rs141840041, TOPMed rs141840041, REVEL 0.34, CADD 31.00, Uncertain significance, not specified
- E70G (p.Glu70Gly), Ensembl rs2127394012
- Q71* (p.Gln71Ter), Ensembl rs761581058
- Q71E (p.Gln71Glu), Ensembl rs761581058, REVEL 0.24, CADD 22.90
- Q71R (p.Gln71Arg), gnomAD rs1326014778, REVEL 0.34, CADD 25.70
- R72C (p.Arg72Cys), Ensembl rs1775967404, REVEL 0.30, CADD 33.00
- R72H (p.Arg72His), Ensembl rs2127394000
- E74K (p.Glu74Lys), TOPMed rs1484894493
- E75A (p.Glu75Ala), Ensembl rs1775967047
- E75D (p.Glu75Asp), NCI-TCGA Cosmic COSV6591, cosmic curated COSV65912, Variant assessed as somatic; moderate impact.
- E76* (p.Glu76Ter), Ensembl rs2127393981
- V77F (p.Val77Phe), Ensembl rs2127393976
- V77L (p.Val77Leu), Ensembl rs2127393976
- F78S (p.Phe78Ser), Ensembl rs2127393970
- P79A (p.Pro79Ala), TOPMed rs1394037912, gnomAD rs1394037912
- P79H (p.Pro79His), ExAC rs747544078, TOPMed rs747544078, gnomAD rs747544078
- P79L (p.Pro79Leu), ExAC rs747544078, TOPMed rs747544078, gnomAD rs747544078, REVEL 0.22, CADD 24.70
- P79S (p.Pro79Ser), TOPMed rs1394037912, gnomAD rs1394037912
- P79T (p.Pro79Thr), TOPMed rs1394037912, gnomAD rs1394037912, REVEL 0.22, CADD 26.50
- A81S (p.Ala81Ser), gnomAD rs1385705873, REVEL 0.21, CADD 23.00
- A81T (p.Ala81Thr), gnomAD rs1385705873, Uncertain significance, not specified
- M82I (p.Met82Ile), ExAC rs748591266, gnomAD rs748591266
- M82V (p.Met82Val), rs772291509, ClinGen CA3804323, ClinVar RCV004152085, ExAC rs772291509, AlphaMissense 0.12, MetaLR 0.00, Uncertain significance, not specified
- N83H (p.Asn83His), NCI-TCGA TCGA novel, Variant assessed as somatic; moderate impact.
- Y84C (p.Tyr84Cys), TOPMed rs1200700356, gnomAD rs1200700356, REVEL 0.60, CADD 26.90
- L85M (p.Leu85Met), rs755858491, ClinGen CA3804320, ClinVar RCV004147816, ExAC rs755858491, REVEL 0.18, CADD 21.90, Uncertain significance, not specified
- D86H (p.Asp86His), ExAC rs745309717, gnomAD rs745309717, REVEL 0.73, CADD 28.70
- R87C (p.Arg87Cys), rs889367305, NCI-TCGA Cosmic COSV1008, cosmic curated COSV10088, TOPMed rs889367305, REVEL 0.52, CADD 32.00, Variant assessed as somatic; moderate impact.
- R87G (p.Arg87Gly), TOPMed rs889367305, gnomAD rs889367305
- R87H (p.Arg87His), ExAC rs780693475, gnomAD rs780693475, REVEL 0.66, CADD 32.00
- R87P (p.Arg87Pro), ExAC rs780693475, gnomAD rs780693475
- Y88D (p.Tyr88Asp), NCI-TCGA TCGA novel, Variant assessed as somatic; moderate impact.
- Y88F (p.Tyr88Phe), Ensembl rs2127393886
- Y88H (p.Tyr88His), ExAC rs757136476, gnomAD rs757136476, REVEL 0.42, CADD 29.50
- Y88S (p.Tyr88Ser), Ensembl rs2127393886
- L89Q (p.Leu89Gln), Ensembl rs2127393879
- S90F (p.Ser90Phe), TOPMed rs973951233
- C91G (p.Cys91Gly), ExAC rs758116591, gnomAD rs758116591, REVEL 0.06, CADD 19.40
- C91R (p.Cys91Arg), ExAC rs758116591, gnomAD rs758116591, REVEL 0.07, CADD 21.00
- C91Y (p.Cys91Tyr), 1000Genomes rs150497154, ESP rs150497154, ExAC rs150497154, TOPMed rs150497154, REVEL 0.06, CADD 22.10, Uncertain significance, not specified
- V92I (p.Val92Ile), cosmic curated COSV65912, Ensembl rs2127393860
- P93H (p.Pro93His), Ensembl rs2127393856
- R95L (p.Arg95Leu), NCI-TCGA Cosmic COSV6591, TOPMed rs1370658194, gnomAD rs1370658194, Variant assessed as somatic; moderate impact.
- R95P (p.Arg95Pro), TOPMed rs1370658194, gnomAD rs1370658194, REVEL 0.07, CADD 22.20
- R95Q (p.Arg95Gln), NCI-TCGA Cosmic COSV6591, cosmic curated COSV65913, TOPMed rs1370658194, gnomAD rs1370658194, Variant assessed as somatic; moderate impact.
- A97S (p.Ala97Ser), Ensembl rs2127393833
- Q100R (p.Gln100Arg), ExAC rs776806939, gnomAD rs776806939, REVEL 0.61, CADD 29.30
- L102R (p.Leu102Arg), ExAC rs772690340, gnomAD rs772690340, REVEL 0.59, CADD 32.00
- G103A (p.Gly103Ala), ExAC rs748453178, TOPMed rs748453178, gnomAD rs748453178, REVEL 0.48, CADD 27.00
- G103D (p.Gly103Asp), ExAC rs748453178, TOPMed rs748453178, gnomAD rs748453178
- G103C (p.Gly103Cys), gnomAD 6-41936096-C-A, CADD 8.86
- G103S (p.Gly103Ser), gnomAD 6-41936096-C-T, CADD 9.35
- A104V (p.Ala104Val), gnomAD rs1399821184, REVEL 0.18, CADD 31.00
- V105A (p.Val105Ala), ExAC rs769272717, gnomAD rs769272717, REVEL 0.11, CADD 22.80
- V105D (p.Val105Asp), NCI-TCGA Cosmic COSV6591, cosmic curated COSV65912, Variant assessed as somatic; moderate impact.
- V105G (p.Val105Gly), ExAC rs769272717, gnomAD rs769272717
- V105L (p.Val105Leu), Ensembl rs2127393762
- C106Y (p.Cys106Tyr), Ensembl rs2127393743
- M107L (p.Met107Leu), cosmic curated COSV10530, ExAC rs745542165, gnomAD rs745542165, REVEL 0.20, CADD 22.60
- A110D (p.Ala110Asp), Ensembl rs1775960200
- A110P (p.Ala110Pro), gnomAD rs1461707452
- A110T (p.Ala110Thr), gnomAD rs1461707452
- A110E (p.Ala110Glu), rs540997482, gnomAD 6-41936098-G-T, CADD 10.70
- S111T (p.Ser111Thr), Ensembl rs2127393708, REVEL 0.32, CADD 24.90
- S111Y (p.Ser111Tyr), NCI-TCGA TCGA novel, Variant assessed as somatic; moderate impact.
- K112N (p.Lys112Asn), TOPMed rs1775959842
- R114C (p.Arg114Cys), Ensembl rs2127393703
- R114L (p.Arg114Leu), cosmic curated COSV65913, TOPMed rs1447795219, REVEL 0.11, CADD 27.50
- R114* (p.Arg114Ter), rs147958536, gnomAD 6-41936078-G-A, CADD 5.13
- E115K (p.Glu115Lys), rs756727994, NCI-TCGA Cosmic COSV1008, NCI-TCGA Cosmic COSV6591, cosmic curated COSV65913, REVEL 0.47, CADD 29.90, Variant assessed as somatic; moderate impact.
- E115Q (p.Glu115Gln), NCI-TCGA Cosmic COSV1008, cosmic curated COSV10088, NCI-TCGA Cosmic COSV6591, Variant assessed as somatic; moderate impact.
- T117M (p.Thr117Met), rs1212176998, gnomAD rs1212176998, REVEL 0.02, CADD 19.30, Variant assessed as somatic; moderate impact.
- T117P (p.Thr117Pro), Ensembl rs2127393686
- P118S (p.Pro118Ser), TOPMed rs1278695873, gnomAD rs1278695873, REVEL 0.51, CADD 29.80
- P118L (p.Pro118Leu), gnomAD 6-41936101-G-A, CADD 10.40
- T120P (p.Thr120Pro), ExAC rs758360513, gnomAD rs758360513, REVEL 0.43, CADD 25.20
- T120S (p.Thr120Ser), ExAC rs758360513, gnomAD rs758360513
- I121M (p.Ile121Met), cosmic curated COSV65912, ExAC rs765106114, TOPMed rs765106114, gnomAD rs765106114, REVEL 0.07, CADD 22.80
- E122G (p.Glu122Gly), rs147998619, ClinGen CA3804294, ClinVar RCV004189877, ESP rs147998619, REVEL 0.26, CADD 32.00, Uncertain significance, not specified
- E122K (p.Glu122Lys), cosmic curated COSV10530, Ensembl rs2127393634
- E122V (p.Glu122Val), ESP rs147998619, ExAC rs147998619, TOPMed rs147998619, gnomAD rs147998619, REVEL 0.32, CADD 32.00, Uncertain significance
- E122* (p.Glu122Ter), rs33966734, gnomAD 6-41936060-C-A, REVEL 0.21, CADD 18.30
- C125* (p.Cys125Ter), gnomAD 6-41936070-G-T, REVEL 0.18, CADD 25.40
- I126L (p.Ile126Leu), gnomAD rs1363914557, REVEL 0.14, CADD 23.50
- I126M (p.Ile126Met), NCI-TCGA Cosmic COSV6591, cosmic curated COSV65912, Variant assessed as somatic; moderate impact.
- I126T (p.Ile126Thr), TOPMed rs970483466
- T128I (p.Thr128Ile), Ensembl rs2127393586
Public CCND3 analysis runs
- CCND3 analysis run — CCND3 (772 variants) — completed 2026-08-19