MmuINT0119682 @ mm9
Intron Retention
Gene
ENSMUSG00000030660 | Pik3c2a
Description
phosphatidylinositol 3-kinase, C2 domain containing, alpha polypeptide [Source:MGI Symbol;Acc:MGI:1203729]
Coordinates
chr7:123502150-123503614:-
Coord C1 exon
chr7:123503510-123503614
Coord A exon
chr7:123502243-123503509
Coord C2 exon
chr7:123502150-123502242
Length
1267 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
GTTTAGTGTTGTGTTTGCAGTCA
3' ss Score
4.83
Exon sequences
Seq C1 exon
GTTGTCCTCCAAAAGAGTATGGAACGGGTACAGTCCTTTTTTCTGAGAAATAAATGCCGTCTTCCTCTCAAACCAAGTCTAGTGGCAAAAGAACTAAATATTAAG
Seq A exon
GTAACACAATACTCTTTTTGTTGTTGTTGTTGTTTTTGTTTGTTTGTTTTGGTTTTTTATGGTTTTTTTGAGACAGGGTTTCTCTGTGTAGCCCTGGGTGTCCTGGAACTCACTCTGTAGACAGGCTGGTCTCAAACTCAGAGATCCGCCTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGCGTGTGCCACCATGCCTGGCTACAATACTCTTTAGGTTCATATACACTTCAAAATAATGCATAAAAAGAGAGTTGCTTCATGCAAGTGTGAATAAGATGTGTTATTTGTAAGTACATAGGAAAGGAAGGGTGTTGTTAGATCTTTTTTCGGCATGTTTTTTTTTCAAAGATTTATATTATCTAAGTACACTGTGGCTGTCTTCAGACGCCCCAGAAGAGGGCATCAGATCTCATTAGAGATGGTTGTGAGCTCCATGTGTTGCTGGGATTTGAACTCAGGACCTTTGGAAGAGCAATCAGTGCTGTTAAGCACCGAGCCATCTCTCCAGTCCTTTTCAGCTTTTTAAAAACCTAATCAGTATTCCTTAAAGACATAGTGTCAGATTTTTTTTTTTACTATTTTGGGTTTTCTTTGTATTTTTTTTGAAACCAACATTCTTATTATTATTTTCAATGGCAATCATAACAAAATAGCACTAAAAAATAAATCATGTCATAACTTAAACTCAAGACAATGTGTAAATGCTATCTTCCTGAGTTTGTTTGTATTCTTAAATTGTTGTGGCCTTATGTTAGCTTTTTGGAAGATTTTATTTTAAGGTAAGATTTTTGTAGAGAATTGGTTTATATGTGTAAAGCCCTATATGTGCAATCCCTAGTCCCACAAAAAGTTAGGTAAAATGTGAGTTGATCTTTTCTGAGGAATTATTAAAATGTTGCTATTTGATTATATAAGTAATGAATGTCACAAGTACATATGTGAAAGTGGATCTGTTCCAGATCAGAATGAGAGTCAAACAACTGTGTGTTCTGTTGAGAGATTCAGACTTAAAGTTCAGGTGATTAAAAAGTTTTTAAATTTTTGTCATGTCTACCTTTTTAGTGAAGCTATTTTACTGCTATATACTATGTTTAAATATCAAGAGATGGTTACATATATTACTGGAGGATCATGTAAATGCTAGTTAACAGCCATTGTTTGATTTGCTGTAATTCAGAACAGAGGAAAAGGAAAACATGAATGAATTCATAATTCACTTTTATGCTAGTGTTAACGTTTCTAATGTTTAGTGTTGTGTTTGCAG
Seq C2 exon
TCATGTTCGTTCTTCAGTTCTAATGCTATGCCTCTGAAAGTCACAATGGTGAATGCTGACCCTCTGGGGGAAGAAATTAATGTCATGTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030660-Pik3c2a:NM_011083:20
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0045422=PI3_PI4_kinase=PU(2.8=19.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCCAAAAGAGTATGGAACGGG
R:
AAACATGACATTAATTTCTTCCCCCA
Band lengths:
190-1457
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: