MmuINT0119722 @ mm9
Intron Retention
Gene
ENSMUSG00000026447 | Pik3c2b
Description
phosphoinositide-3-kinase, class 2, beta polypeptide [Source:MGI Symbol;Acc:MGI:2685045]
Coordinates
chr1:134997907-134998974:+
Coord C1 exon
chr1:134997907-134998031
Coord A exon
chr1:134998032-134998856
Coord C2 exon
chr1:134998857-134998974
Length
825 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCC
5' ss Score
7.13
3' ss Seq
TTTTCTGCCTCTCACACTAGCTT
3' ss Score
7.74
Exon sequences
Seq C1 exon
GTATATGTGGTGAAGGTGATGCGAGAGAATGCTCACGAGGCGACATACATCCAGAGGACATTCGAGGAGTTCCAGGAACTGCACAATAAGCTGCGCCTGCTCTTCCCTTCTTCCTTCCTGCCCAG
Seq A exon
GTAGCCCCTCCCCCCCCCAGTCTTGCCAGAGCTGAAAGATGGGGGTGGGGGGTACGAGGGAGGGAGCTAGCAGGACTGCTGTTTGAGAAAGAACCATTTCAAACTGAGAATCTGTCAGCCTGGTGTTGGGCTTGGTAACAGGAGCGCCCCCTGCTGGCTCGTATCTCCAGACATCCCAACCGCCTTGCCCTAGTCTTGGAAAACAAAGTGTGGGGGCACCAGCCAGAAAGCAAGCCAGCTGAGCTGAAAGCAGGGCACTAGGTGATCTCAATGTGACTCGAGGTTTATAACATAGCAAAAGAATGTATGTGTGTGTATATATAATATAGATAATACAATGTATATATGATCATTTATAGTATAGCAATATATAATAACATAATATATAATTGAAATTAATATATAATAATATAATATGTATATATAATTGAAAGGGAAGGACCTTTGATAGCTACGTCATGCGCCTAAATGAAAGACGCCAGGGCAGAAGATGATTCTGTTTATTGGAGTCCCCCAGAGTAATCAGAGTCTTAGGGATGGAATGTAGACTTGGTGGCTGAGGTATAACAAGTGTGCTGCCTCAGTTTTGCAAGATGGAAAGAGTTTGGGACCTGGCTTCCGGGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGTGTGTACAGAGAAAGAGATAGAGCTGGATCAACCCAGGCACAGATGTGAGCACAGACTGGGGAGTCTAGTAGGAGTCAGGGAAGAAAGGTAACTAGAGATGCAAATGGAATGTCTAAGCCTTCAGACTCACTCGTGTCCCTATGTCTGTTTTCTGCCTCTCACACTAG
Seq C2 exon
CTTCCCTAGCCGGTTTGTGATTGGCCGCTCCCGGGGAGAGGCAGTGGCTGAGAGGAGGAAGGAGGAGTTAAATGGCTACATCTGGCACCTGATTCATGCAGCCCCTGAGGTGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026447-Pik3c2b:NM_001099276:28
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:
PF0078719=PX=FE(36.3=100)
A:
NA
C2:
PF0078719=PX=FE(34.5=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:
ATGTGGTGAAGGTGATGCGAG
R:
CTCAGCCACCTCAGGGGC
Band lengths:
239-1064
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: