MmuINT0119694 @ mm9
Intron Retention
Gene
ENSMUSG00000030660 | Pik3c2a
Description
phosphatidylinositol 3-kinase, C2 domain containing, alpha polypeptide [Source:MGI Symbol;Acc:MGI:1203729]
Coordinates
chr7:123485666-123485985:-
Coord C1 exon
chr7:123485876-123485985
Coord A exon
chr7:123485792-123485875
Coord C2 exon
chr7:123485666-123485791
Length
84 bp
Sequences
Splice sites
5' ss Seq
CTTGTGAGT
5' ss Score
7.15
3' ss Seq
GAGACTGCTTTTCTTTATAGGTG
3' ss Score
8.85
Exon sequences
Seq C1 exon
GTGCAGTTCCCTTCAGCCCAACTCTGGGCCAAATAGGAGGAGCAGTGAAGTTATCTGTTTCTTACCGAAATGGCACCCTCTTCATCATGGTGATGCACATCAAAGATCTT
Seq A exon
GTGAGTGGTGACAAATGCTGACTGTAGAGTAAATTTGTACCTCGGTAGGAAGCACCACTATAAAGAGACTGCTTTTCTTTATAG
Seq C2 exon
GTGACTGAAGATGGGGCTGACCCAAATCCCTATGTCAAAACATACCTGCTTCCAGATACCCACAAAACGTCAAAACGTAAAACCAAAATTTCACGTAAAACTAGGAACCCAACATTCAATGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030660-Pik3c2a:NM_011083:31
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.190
Domain overlap (PFAM):
C1:
PF0016825=C2=PU(11.2=27.0)
A:
NA
C2:
PF0016825=C2=FE(46.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTCCCTTCAGCCCAACTCT
R:
TGTGGGTATCTGGAAGCAGGT
Band lengths:
170-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: