- Panels
- Skeletal dysplasia
- PIK3C2A
- ABCC9 1
- ABL1 2
- ACAN 1
- ACP5 1
- ACVR1 2
- ADAMTS10 1
- ADAMTS17 1
- ADAMTSL2 1
- AFF3 1
- AFF4 2
- AGA 1
- AGPS 1
- ALG12 1
- ALG3 1
- ALG9 1
- ALPL 3
- ALX1 1
- ALX3 1
- ALX4 1
- AMER1 1
- ANKH 1
- ANKRD11 1
- ANO5 1
- ANTXR2 1
- ARHGAP31 2
- ARID1A 2
- ARID1B 2
- ARL6 1
- ARSB 1
- ARSE 1
- ARSK 1
- ASXL1 1
- ASXL2 1
- ATP6V0A2 1
- ATP7A 3
- AXIN1 2
- B3GALT6 1
- B3GAT3 1
- B3GLCT 1
- B4GALT7 2
- BBS1 2
- BBS10 1
- BBS12 2
- BBS2 1
- BBS4 1
- BBS5 1
- BBS7 1
- BBS9 1
- BGN 1
- BHLHA9 1
- BMP1 1
- BMP2 1
- BMPER 1
- BMPR1B 2
- C21orf2 1
- C2CD3 2
- CA2 2
- CANT1 1
- CASR 1
- CBFB 1
- CC2D2A 2
- CCDC8 1
- CDC45 1
- CDH3 1
- CDKN1C 1
- CDT1 1
- CEP120 1
- CEP290 1
- CHST14 1
- CHST3 1
- CHSY1 1
- CLCN5 1
- CLCN7 1
- COG1 1
- COG4 2
- COL10A1 2
- COL11A1 1
- COL11A2 1
- COL1A1 1
- COL1A2 1
- COL27A1 2
- COL2A1 1
- COL9A1 1
- COL9A2 1
- COL9A3 3
- COLEC11 1
- COMP 1
- CREB3L1 1
- CREBBP 1
- CRTAP 1
- CSGALNACT1 1
- CSPP1 1
- CTSA 1
- CTSC 2
- CTSK 1
- CUL7 1
- CYP26B1 1
- CYP27B1 1
- CYP2R1 1
- DCC 3
- DDR2 1
- DDRGK1 2
- DHCR24 2
- DHCR7 4
- DHODH 2
- DIS3L2 1
- DLL3 1
- DLL4 1
- DLX3 1
- DLX5 1
- DMP1 1
- DNAJC21 1
- DNMT3A 2
- DOCK6 1
- DONSON 1
- DPAGT1 1
- DPM1 1
- DSPP 1
- DVL1 2
- DVL3 1
- DYM 1
- DYNC2H1 1
- DYNC2LI1 2
- EBP 2
- EED 1
- EFL1 1
- EFTUD2 2
- EIF2AK3 1
- EN1 1
- ENPP1 1
- EOGT 1
- ERF 1
- ERI1 2
- ESCO2 1
- EVC 3
- EVC2 2
- EXOC6B 1
- EXT1 1
- EXT2 1
- EXTL3 1
- EZH2 2
- FAM111A 1
- FAM20C 1
- FAM46A 1
- FAM58A 1
- FBN1 0
- FBN2 2
- FERMT3 1
- FGF10 1
- FGF16 1
- FGF23 1
- FGF9 2
- FGFR1 2
- FGFR2 1
- FGFR3 1
- FIG4 0
- FKBP10 1
- FLNA 1
- FLNB 2
- FN1 1
- FUCA1 1
- FUZ 1
- FZD2 1
- GALNS 1
- GALNT3 1
- GDF5 3
- GDF6 3
- GHR 1
- GINS3 1
- GJA1 1
- GLB1 1
- GLI3 3
- GNAS 1
- GNPAT 1
- GNPTAB 2
- GNPTG 1
- GNS 1
- GORAB 1
- GPC6 3
- GPX4 1
- GSC 1
- GUSB 1
- GZF1 1
- HDAC8 1
- HES7 1
- HGSNAT 2
- HHAT 2
- HOXA13 1
- HOXD13 1
- HPGD 1
- HSPG2 3
- ICK 1
- IDH1 1
- IDS 1
- IDUA 2
- IFIH1 3
- IFITM5 2
- IFT122 1
- IFT140 2
- IFT172 2
- IFT43 1
- IFT52 1
- IFT74 1
- IFT80 1
- IHH 1
- IKBKG 1
- IL11RA 1
- IL1RN 1
- IMPAD1 1
- INPPL1 2
- KAT6B 1
- KCNJ2 1
- KIAA0586 1
- KIAA0753 2
- KIF22 2
- KIF5B 2
- KIF7 1
- KMT2D 1
- LBR 2
- LEMD3 1
- LFNG 1
- LIFR 2
- LMBR1 1
- LMNA 0
- LMX1B 2
- LONP1 1
- LPIN2 1
- LRP4 2
- LRP5 1
- LRRK1 1
- LTBP3 1
- MAB21L2 1
- MAFB 2
- MAN2B1 1
- MAP3K7 1
- MASP1 1
- MATN3 1
- MBTPS1 1
- MECOM 2
- MEGF8 1
- MEOX1 2
- MESD 1
- MESP2 1
- MGP 2
- MIR140 2
- MIR17HG 1
- MKKS 3
- MKS1 1
- MMP13 1
- MMP2 1
- MMP9 1
- MNX1 1
- MPDU1 1
- MSX2 1
- MTX2 1
- MYCN 2
- NAGLU 2
- NANS 1
- NBAS 1
- NEK1 2
- NEPRO 3
- NEU1 1
- NF1 1
- NFIX 1
- NIPBL 1
- NKX3-2 1
- NLRP3 1
- NOG 1
- NOTCH1 2
- NOTCH2 1
- NPR2 1
- NSD1 1
- NSDHL 2
- OBSL1 1
- OFD1 2
- ORC1 1
- ORC4 1
- ORC6 1
- OSTM1 1
- P3H1 1
- P4HB 1
- PAM16 1
- PAPSS2 1
- PAX3 1
- PCNT 1
- PCYT1A 1
- PDE3A 1
- PDE4D 2
- PEX5 1
- PEX7 1
- PGM3 1
- PHEX 1
- PHF6 1
- PHGDH 1
- PIGT 1
- PIGV 1
- PIK3C2A 2
- PIK3R1 2
- PISD 2
- PITX1 1
- PKDCC 3
- PLOD2 1
- PLS3 1
- POC1A 1
- POLR1A 2
- POLR1B 2
- POLR1C 1
- POLR1D 1
- POP1 1
- POR 2
- PPIB 1
- PRKAR1A 1
- PRKG2 2
- PRMT7 1
- PSAT1 2
- PSPH 1
- PTDSS1 1
- PTH1R 1
- PTHLH 1
- PTPN11 1
- PUF60 1
- PYCR1 3
- RAB23 1
- RAB33B 1
- RAB34 1
- RAB3GAP2 1
- RASGRP2 1
- RBM8A 1
- RBPJ 1
- RECQL4 1
- RFT1 1
- RIPPLY2 1
- RMRP 2
- RNU4ATAC 2
- ROR2 1
- RPGRIP1L 1
- RPL13 1
- RUNX2 1
- SALL1 1
- SALL4 2
- SBDS 1
- SCARF2 1
- SCUBE3 1
- SEC24D 1
- SEMA3A 2
- SERPINF1 1
- SERPINH1 1
- SETD2 2
- SF3B4 1
- SFRP4 2
- SGSH 1
- SH3BP2 2
- SH3PXD2B 1
- SHOX 1
- SKI 2
- SLC10A7 1
- SLC17A5 2
- SLC26A2 1
- SLC29A3 1
- SLC34A1 1
- SLC34A3 1
- SLC35C1 1
- SLC35D1 2
- SLC39A13 1
- SLCO2A1 1
- SMAD3 0
- SMAD4 1
- SMAD6 2
- SMARCAL1 1
- SMARCB1 1
- SMARCE1 1
- SMC1A 2
- SMC3 1
- SMOC1 1
- SNRPB 1
- SNX10 1
- SOST 1
- SOX11 2
- SOX9 1
- SP7 1
- SPARC 1
- SRP54 1
- STT3A 1
- SUMF1 1
- TAB2 1
- TALDO1 1
- TBCE 1
- TBX15 1
- TBX3 1
- TBX4 1
- TBX5 2
- TBX6 4
- TBXAS1 1
- TCIRG1 1
- TCOF1 1
- TCTEX1D2 1
- TCTN2 1
- TCTN3 1
- TERT 1
- TGFB1 1
- TGFB2 1
- TGFBR2 0
- TMCO1 1
- TMEM165 1
- TMEM216 1
- TMEM231 1
- TMEM38B 1
- TMEM53 1
- TNFRSF11A 1
- TNFRSF11B 1
- TNFSF11 1
- TONSL 2
- TP63 1
- TRAPPC2 1
- TREM2 1
- TRIP11 1
- TRPS1 1
- TRPV4 1
- TRPV6 1
- TTC21B 3
- TTC8 1
- TWIST1 1
- TYROBP 2
- UBA2 3
- UFSP2 2
- USP9X 1
- VDR 1
- WDPCP 1
- WDR19 1
- WDR34 1
- WDR35 2
- WDR60 1
- WISP3 1
- WNT1 1
- WNT10B 1
- WNT5A 1
- WNT7A 2
- XRCC4 2
- XYLT1 1
- XYLT2 1
- YY1 1
- ZMPSTE24 1
- ZSWIM6 2
- B9D1 3
- BNIP1 1
- CHST11 1
- CTGF 2
- FAM20B 1
- FGF8 2
- GNPNAT1 3
- HDAC4 3
- HNRNPK 2
- HYLS1 3
- IFT81 1
- MANBA 1
- MIA3 1
- MTAP 1
- RAD21 3
- RSPRY1 1
- SIK3 1
- SLC13A1 3
- TAPT1 3
- TMEM251 2
- ACVR2B 2
- ADGRV1 1
- ADI1 1
- AHI1 2
- AKT1 3
- ARL13B 1
- ATXN10 0
- B9D2 1
- BANF1 1
- BMP5 2
- C5orf42 1
- CCDC28B 3
- CCDC39 1
- CCDC40 1
- CD96 1
- CDC6 1
- CDH23 1
- CEP164 1
- CEP41 1
- CFTR 1
- CKAP2L 1
- CLRN1 1
- COL12A1 1
- COL5A1 1
- COLEC10 1
- CRB1 1
- CRELD1 2
- CRX 1
- DACT1 1
- DDX41 1
- DLX6 0
- DNAAF1 1
- DNAAF2 1
- DNAAF3 1
- DNAH11 2
- DNAH5 1
- DNAI1 1
- DNAI2 1
- DNAL1 1
- DOLPP1 0
- DPM2 1
- DPM3 1
- EP300 1
- ESR1 1
- ETF1 1
- FBLIM1 0
- FBLN1 2
- FBXW4 1
- FMN1 1
- FOXC1 2
- FOXH1 1
- GDF1 2
- GDF3 1
- GLIS2 1
- GREM1 1
- GUCY2D 1
- HDAC5 0
- HOXA11 1
- HOXD11 0
- IDH2 1
- IFT88 0
- INVS 1
- IQCB1 1
- LAMA5 2
- LCA5 1
- LEFTY2 2
- LOXL3 1
- LRAT 1
- LRP6 2
- LTBP2 1
- MAN2C1 2
- MCM5 1
- MMP14 0
- MYO7A 1
- NEK8 1
- NEK9 1
- NFATC2 1
- NIN 1
- NKX2-5 2
- NME8 1
- NODAL 2
- NPHP1 1
- NPHP3 2
- NPHP4 1
- NPPC 1
- OAT 1
- PCDH15 1
- PIK3CA 1
- PIN1 0
- PIR 0
- PKD2 1
- PKHD1 1
- PLCB3 1
- PLEKHM1 1
- PLOD1 1
- PTPRQ 1
- RD3 1
- RDH12 1
- RPE65 1
- RPGR 1
- RPGRIP1 2
- RSPH4A 1
- RSPH9 1
- SCNN1A 1
- SCNN1B 1
- SCNN1G 2
- SDCCAG8 1
- SEM1 0
- SHH 2
- SLCO5A1 0
- SOX8 1
- SPECC1L 1
- TCTN1 1
- TDP2 1
- TGDS 1
- THPO 1
- TMEM138 1
- TMEM237 1
- TMEM67 1
- TNXB 1
- TOPORS 2
- TRIM32 2
- TRMT10A 1
- TSC1 0
- TSC2 0
- TULP1 2
- UMOD 3
- USH1C 1
- USH1G 1
- USH2A 1
- VAC14 1
- VHL 0
- WHRN 1
- WNT3 1
- WRN 1
- XPNPEP3 1
- ZBTB16 1
- ZIC3 2
- ZNF423 2
-
2q37.3 terminal region (includes HDAC4) Loss
ISCA-37394-Loss 0 -
16p13.3 region (includes CREBBP) Loss
ISCA-37406-Loss 0 -
17p11.2 recurrent (SMS/PLS) region (includes RAI1) Loss
ISCA-37418-Loss 0 -
1p36 terminal region (includes GABRD) Loss
ISCA-37434-Loss 0 -
11p11.2 (Potocki-Shaffer syndrome) region (includes ALX4, EXT2) Loss
ISCA-37441-Loss 0 -
17q23.1q23.2 recurrent region (includes TBX2, TBX4) Loss
ISCA-37501-Loss 0
Skeletal dysplasia
Gene: PIK3C2A Green List (high evidence)EnsemblGeneIds (GRCh38): ENSG00000011405
EnsemblGeneIds (GRCh37): ENSG00000011405
OMIM: 603601, Gene2Phenotype
PIK3C2A is in 7 panels
2 reviews
Elena Savva (Victorian Clinical Genetics Services)
Green List (high evidence)
Function: catalyzes the phosphorylation of the lipids that are essential for a variety of cellular processes including cilia formation and vesicle trafficking.
PMID: 31034465 - 3 unrelated families (5 patients) with cataracts, skeletal abnormalities, hearing loss, nephrocalcinosis, visual defects etc. Variants included a nonsense, canonical splice causing a large inframe deletion-insertion and intragenic CNV.
MRIs revealed multiple forntal and periventricular lacunar infarcts, lesions of white matter. No mention of MTS or cerebellar atrophy.
Functional assays on patents fibroblasts showed reduced accumulation of PI(3)P (a downstream target of this gene) at the base of cilia and reduced cilia length.
Sources: Expert listCreated: 19 May 2020, 10:45 p.m.
Mode of inheritance
BIALLELIC, autosomal or pseudoautosomal
Phenotypes
Oculoskeletodental syndrome 618440
Publications
- PMID: 31034465
Panel version: Imported from Mendeliome panel version Imported from Ciliopathies panel version 0.161
Zornitza Stark (Victorian Clinical Genetics Services; Australian Genomics)
Green List (high evidence)
Three unrelated consanguineous families reported.
Sources: Expert listCreated: 21 Jan 2020, 11:49 p.m.
Mode of inheritance
MONOALLELIC, autosomal or pseudoautosomal, NOT imprinted
Phenotypes
Oculoskeletodental syndrome, MIM# 618440
Publications
Variants in this GENE are reported as part of current diagnostic practice
Panel version: Imported from Mendeliome panel version 0.901
Details
- Mode of Inheritance
- BIALLELIC, autosomal or pseudoautosomal
- Sources
-
- Expert list
- Expert Review Green
- Expert list
- Expert Review Green
- Literature
- Phenotypes
-
- Oculoskeletodental syndrome 618440
- OMIM
- 603601
- Clinvar variants
- Variants in PIK3C2A
- Penetrance
- None
- Publications
- Panels with this gene
History Filter Activity
Created, Added New Source, Set mode of inheritance, Set publications, Set Phenotypes
Zornitza Stark (Victorian Clinical Genetics Services; Australian Genomics)gene: PIK3C2A was added gene: PIK3C2A was added to Skeletal dysplasia. Sources: Literature,Expert Review Green Mode of inheritance for gene: PIK3C2A was set to BIALLELIC, autosomal or pseudoautosomal Publications for gene: PIK3C2A were set to 31034465 Phenotypes for gene: PIK3C2A were set to Oculoskeletodental syndrome 618440