MmuINT0119728 @ mm10
Intron Retention
Gene
ENSMUSG00000026447 | Pik3c2b
Description
phosphoinositide-3-kinase, class 2, beta polypeptide [Source:MGI Symbol;Acc:MGI:2685045]
Coordinates
chr1:133071174-133071722:+
Coord C1 exon
chr1:133071174-133071328
Coord A exon
chr1:133071329-133071601
Coord C2 exon
chr1:133071602-133071722
Length
273 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
TTTTGCCTTACCCGTTCCAGGTT
3' ss Score
9.25
Exon sequences
Seq C1 exon
CCTTCGAACGGGCTCTGATATCCAGGACTATTCCCTAACTGGGTGTGTCTGGAGCACTGTCACCCCAAGTCCAGAACACCTTGGGGATGAGGTCAACCTGAAGGTGACAGTGTTGTGTGACAGTCTCCGGGAGCCACTCACCTTTACCTGCAACT
Seq A exon
GTGAGTTAGTCGGGGTTACACCAGTGTCCCTAGAGCTGAGGCAGGGAGGACTATTCGGGAACTTTGTTTCTCACCTCACTCTGTCGCCTGAATGAAGACTTTTCTGAAGGGACAGCTGTCTGGGTACATAGTAACTTTGCTCCACCCCAAGTTTTATCTGACTGCCGGTGGGTACTAGAGACCACTTGGCTGATGATAAAGGAACGAGGTAGAGAGGGTCTGTCCCAGTTGCCCGATGTCACTGCCCTCGCTCTTTTGCCTTACCCGTTCCAG
Seq C2 exon
GTTCCTCCACCGTGGACCTGCTCATCCACCAGACCCTCTGCTACACTCACGATGAGCTGAGGGAAGTGGACGTGGGCGACTTTGTGCTGAAGCCCTGTGGGCTGGAGGAGTTCTTGCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026447:ENSMUST00000077730:4
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:
PF0079413=PI3K_rbd=PU(32.0=62.3)
A:
NA
C2:
PF0079413=PI3K_rbd=FE(38.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCGAACGGGCTCTGATAT
R:
TTTTGCAAGAACTCCTCCAGCC
Band lengths:
276-549
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