PIK3CA-DT (PIK3CA divergent transcript) - Rat Genome Database

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Gene: PIK3CA-DT (PIK3CA divergent transcript) Homo sapiens
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Symbol: PIK3CA-DT
Name: PIK3CA divergent transcript
RGD ID: 16554317
HGNC Page HGNC:52932
Description: ASSOCIATED WITH Currarino syndrome
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: AC076966.2; LOC101928739; uncharacterized LOC101928739
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38.p14 Ensembl - Human Genome Assembly GRCh38 Ensembl
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383179,101,371 - 179,147,973 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3179,097,948 - 179,148,098 (-)EnsemblGRCh38hg38GRCh38
GRCh373178,819,159 - 178,865,761 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map3q26.32NCBI
HuRef3176,223,928 - 176,269,292 (-)NCBIHuRef
CHM1_13178,782,050 - 178,828,675 (-)NCBICHM1_1
T2T-CHM13v2.03181,905,199 - 181,951,801 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References
Additional References at PubMed
PMID:12477932  


Genomics

Variants

.
Variants in PIK3CA-DT
1 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 3q26.32-29(chr3:178411707-198110319)x3 copy number gain See cases [RCV000051736] Chr3:178411707..198110319 [GRCh38]
Chr3:178129495..197837190 [GRCh37]
Chr3:179612189..199321587 [NCBI36]
Chr3:3q26.32-29		 pathogenic
GRCh38/hg38 3q26.1-29(chr3:166137209-198125115)x3 copy number gain See cases [RCV000143694] Chr3:166137209..198125115 [GRCh38]
Chr3:165854997..197851986 [GRCh37]
Chr3:167337691..199336383 [NCBI36]
Chr3:3q26.1-29		 pathogenic
NC_000003.12:g.177772523_185716872dup duplication Currarino triad [RCV000417195] Chr3:177772523..185716872 [GRCh38]
Chr3:3q26.32-27.2		 likely pathogenic
GRCh38/hg38 3q13.11-29(chr3:103426882-198110178)x3 copy number gain See cases [RCV000134948] Chr3:103426882..198110178 [GRCh38]
Chr3:103145726..197837049 [GRCh37]
Chr3:104628416..199321446 [NCBI36]
Chr3:3q13.11-29		 pathogenic
GRCh38/hg38 3q25.1-29(chr3:152100512-198118383)x3 copy number gain See cases [RCV000139435] Chr3:152100512..198118383 [GRCh38]
Chr3:151818301..197845254 [GRCh37]
Chr3:153300991..199329651 [NCBI36]
Chr3:3q25.1-29		 pathogenic
GRCh38/hg38 3q26.32-29(chr3:176439911-198118383)x3 copy number gain See cases [RCV000138009] Chr3:176439911..198118383 [GRCh38]
Chr3:176157699..197845254 [GRCh37]
Chr3:177640393..199329651 [NCBI36]
Chr3:3q26.32-29		 pathogenic|likely benign
GRCh38/hg38 3q25.31-29(chr3:156321878-198113452)x3 copy number gain See cases [RCV000140849] Chr3:156321878..198113452 [GRCh38]
Chr3:156039667..197840323 [GRCh37]
Chr3:157522361..199324720 [NCBI36]
Chr3:3q25.31-29		 pathogenic
GRCh38/hg38 3q26.2-29(chr3:168167568-198110178)x3 copy number gain See cases [RCV000137106] Chr3:168167568..198110178 [GRCh38]
Chr3:167885356..197837049 [GRCh37]
Chr3:169368050..199321446 [NCBI36]
Chr3:3q26.2-29		 pathogenic
GRCh38/hg38 3q25.31-29(chr3:156118441-198125115)x3 copy number gain See cases [RCV000142310] Chr3:156118441..198125115 [GRCh38]
Chr3:155836230..197851986 [GRCh37]
Chr3:157318924..199336383 [NCBI36]
Chr3:3q25.31-29		 pathogenic
GRCh38/hg38 3q26.32-29(chr3:176168525-198118383)x3 copy number gain See cases [RCV000138662] Chr3:176168525..198118383 [GRCh38]
Chr3:175886313..197845254 [GRCh37]
Chr3:177369007..199329651 [NCBI36]
Chr3:3q26.32-29		 pathogenic
GRCh38/hg38 3q26.32-26.33(chr3:178391683-179786092)x3 copy number gain See cases [RCV000143712] Chr3:178391683..179786092 [GRCh38]
Chr3:178109471..179503880 [GRCh37]
Chr3:179592165..180986574 [NCBI36]
Chr3:3q26.32-26.33		 likely benign|uncertain significance
GRCh38/hg38 3q24-29(chr3:147521892-198096565)x3 copy number gain See cases [RCV000051725] Chr3:147521892..198096565 [GRCh38]
Chr3:147239679..197823436 [GRCh37]
Chr3:148722369..199307833 [NCBI36]
Chr3:3q24-29		 pathogenic
GRCh38/hg38 3q25.31-29(chr3:157293378-198134727)x3 copy number gain See cases [RCV000051726] Chr3:157293378..198134727 [GRCh38]
Chr3:157011167..197861598 [GRCh37]
Chr3:158493861..199345995 [NCBI36]
Chr3:3q25.31-29		 pathogenic
GRCh38/hg38 3q26.1-28(chr3:167717962-188365272)x3 copy number gain See cases [RCV000142107] Chr3:167717962..188365272 [GRCh38]
Chr3:167435750..188083060 [GRCh37]
Chr3:168918444..189565754 [NCBI36]
Chr3:3q26.1-28		 likely pathogenic
GRCh38/hg38 3q26.1-26.33(chr3:165158611-180130168)x3 copy number gain See cases [RCV000139359] Chr3:165158611..180130168 [GRCh38]
Chr3:164876399..179847956 [GRCh37]
Chr3:166359093..181330650 [NCBI36]
Chr3:3q26.1-26.33		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:128
Count of miRNA genes:106
Interacting mature miRNAs:108
Transcripts:ENST00000435560
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
entire extraembryonic component
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
68 122 140 76 505 126 242 2 25 127 27 135 448 341 23 453 108 487 203 5

Sequence


Ensembl Acc Id: ENST00000435560
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl3179,101,366 - 179,147,973 (-)Ensembl
Ensembl Acc Id: ENST00000822433
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl3179,097,952 - 179,148,019 (-)Ensembl
Ensembl Acc Id: ENST00000822434
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl3179,097,948 - 179,148,000 (-)Ensembl
Ensembl Acc Id: ENST00000822435
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl3179,101,365 - 179,148,098 (-)Ensembl
Ensembl Acc Id: ENST00000822436
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl3179,101,366 - 179,148,024 (-)Ensembl
Ensembl Acc Id: ENST00000822437
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl3179,101,366 - 179,147,972 (-)Ensembl
Ensembl Acc Id: ENST00000822438
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl3179,102,913 - 179,148,030 (-)Ensembl
Ensembl Acc Id: ENST00000822439
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl3179,102,913 - 179,148,007 (-)Ensembl
Ensembl Acc Id: ENST00000822440
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl3179,147,494 - 179,148,042 (-)Ensembl
RefSeq Acc Id: NR_125401
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh383179,101,371 - 179,147,973 (-)NCBI
T2T-CHM13v2.03181,905,199 - 181,951,801 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC PIK3CA-DT COSMIC
Ensembl Genes ENSG00000229102 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000435560 ENTREZGENE
GTEx ENSG00000229102 GTEx
HGNC ID HGNC:52932 ENTREZGENE
Human Proteome Map PIK3CA-DT Human Proteome Map
NCBI Gene LOC101928739 ENTREZGENE
RNAcentral URS00007E3D91 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-08-02 PIK3CA-DT  PIK3CA divergent transcript  AC076966.2  novel transcript  Symbol and/or name change 19259463 PROVISIONAL
2020-06-25 AC076966.2  novel transcript  LOC101928739  uncharacterized LOC101928739  Symbol and/or name change 19259462 PROVISIONAL
2020-06-18 LOC101928739  uncharacterized LOC101928739  AC076966.2  novel transcript  Symbol and/or name change 5135510 APPROVED