MmuINT0119675 @ mm10
Intron Retention
Gene
ENSMUSG00000030660 | Pik3c2a
Description
phosphatidylinositol 3-kinase, C2 domain containing, alpha polypeptide [Source:MGI Symbol;Acc:MGI:1203729]
Coordinates
chr7:116368044-116368858:-
Coord C1 exon
chr7:116368747-116368858
Coord A exon
chr7:116368190-116368746
Coord C2 exon
chr7:116368044-116368189
Length
557 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
ATTTCTGTTAATTTTTTCAGGTT
3' ss Score
9.66
Exon sequences
Seq C1 exon
GTTTTTAACATGTGGAACTAAACTTCTCTACCTTTGGACTTCATCACATACAAATTCTATTCCTGGAGCAATCCCCAAAAAAAGCTATGTCATGGAAAGAATTGTGCTACAG
Seq A exon
GTAATGGTAGTTATTGATTCACGGAGGGCTTAAGTGTGAATGTCTTTTTAAACAGGGTTTGTATATTCCATAGCATGGATTGTTATTAAAGAAGCCTAATCTTGCTTTAATCTCACAATCTGTCTTCAATTTAAGTGTTAATAAAACCATTTCCAGTTTCTCTGAGAGTAAAACATGGTGTTTCTATCCCAAGAAATAAAAACATGCTTTTGAGAATGACAAACTGTTGTTGGTAATCACTATCAACAGGAAGAAAAAAGTACTAGCTTTATACTTAATATCAATTTATCTAGATTGTTAAGAAAAATTGGTTTCCTGAAAGACAAAGATACTAATATGGAAATTTTGGATTATAATTTGAGTGATTTTGCCAGGCAGTGGTGAGTCCCAAGACTCAGGAGGCAAAGGTAGACAGATCTCTGAGTTTAAGGTGAATCTGGTCTACAGAGTGAGTTCCAGCACAGCCGGGGCTACACAGAGAAATTCTGTCTTTGGAAAACCAAGTACACACACACACACACACATATTTTTTCACTGATTTCTGTTAATTTTTTCAG
Seq C2 exon
GTTGATTTTCCTTCTCCTGCGTTTGACATTATTTATACATCTCCTCAAATTGATAGAAACATTATACAGCAAGACAAGTTGGAAACACTGGAGAGTGATATAAAGGGGAAACTTCTGGATATTATTCACAGAGATTCATCATTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030660:ENSMUST00000170430:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0079219=PI3K_C2=FE(26.2=100)
A:
PF0061315=PI3Ka=PU(12.0=44.9)
C2:
PF0079219=PI3K_C2=PD(3.5=10.2),PF0061315=PI3Ka=PU(12.5=46.9)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACATGTGGAACTAAACTTCTCTACC
R:
TCTGTGAATAATATCCAGAAGTTTCC
Band lengths:
238-795
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types