MmuINT0119680 @ mm9
Intron Retention
Gene
ENSMUSG00000030660 | Pik3c2a
Description
phosphatidylinositol 3-kinase, C2 domain containing, alpha polypeptide [Source:MGI Symbol;Acc:MGI:1203729]
Coordinates
chr7:123503510-123505741:-
Coord C1 exon
chr7:123505561-123505741
Coord A exon
chr7:123503615-123505560
Coord C2 exon
chr7:123503510-123503614
Length
1946 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
AAAGGTAATCTCTTCCATAGGTT
3' ss Score
6.98
Exon sequences
Seq C1 exon
GCTTCTCAAGGATGCTTTGCATGATACACACTTTGGAAGCAGATATGAACATGTGTTGGGTGCTCTCCTCTCTGTAGGAGGAAAAGGACTCAGAGAAGAGCTTTCTAAGCAGATGAAACTTGTACAGCTTTTAGGAGGAGTGGCAGAAAAAGTAAGGCAGGCTAGTGGATCAACAAGACAG
Seq A exon
GTATGTTCCCATCGAAGAGAGTACAAGGACTCTTTTGGCAGGGGGGTGGGGGGGTGGCATCTCTCCACATACCCAGGCAGGCTGTCCCCTGTATCTTTTTGCCTCAGCCTCCACAGTGCTGGGAGATACTTGTCAACTCACTTGGGCAATTTTTTTTTTGTTTTTTTTAAAATGTTTTTATTGATTATTTGGAAATTTCAGATAATGTACCCTGATCCCATTCACTTCCCAGTCGCCCTAGGTCCACTGCAACTCTTATGACCTCCCCTAAAACAGAATAAGAAGGAAAACAAACAAACAAACCCAAGTCCAATTTGTATTGCCCATATATTTACTGGAGCATGGTCAAACTCCCAGTGGCCAGCCCTTTAAAGAAAACTAATTCCATCCCCTACGCCAACCCCTCCAGAAGCCACCAACTGGAAGAGCCTATACTTCTGCTGCCTTATTGCAATTTTTAAGAGTTCTTTTCAACTTGGGCAGTTGAAATTTTAATAAGAGCTATGTTTGAATCTAAGATCAACTTGGAAATACTGCAATTATAACAATGTGTATGTGTCTATATATCTAACTTTTTGGGGGGTTGGGGTTTTTTGTTTGTTTGTTTGTTTGTTTGTTTTTTGAGAAGGGGGTCTCCCTATAAGCTTTGGCTGTCCTTGAACTCACTATGTTGACCAGGCTGGTCTCAAAATCACAGAGATCTTCATATTTCTGCCTCCCAATGCTGGGTTGAAGGTATGCTCTGCTATCCCCAGCCATAATAATGTATCCTAATTCTTGAATTCAGCTGGTCTTGTATCATGAACACAAGATAGGCTGTTTATTCAGATGTTCTTAGATTATTTCAAATATTGTTCTTGTTTTTGTTTTGTTTTTGAAAATGTCTCTTTTCACTTTATCTTGGAGAAGTCTTGTCAGCACATAGAGTTATACTTCACATTCTGTAAGTATATAATGTCACCAAGTACTGAGAACATGATTTCTGAACCTCCGTGTACATTTTTTATATATTTTTGGTTTCCCATGTAATGCTGCTGTGAACATTATTACATACAGCTTCACTCATCCCCTAGCATTCCTTATTTCTTTCCTTTTATGTTTTGAAAGGATGGCATCTTACTGGGTTGCCCAGGCTGGTCTCAGACTCTTAAGTTATCTCAAAGCCCTGTTTCAATCTCCCTAATAGCTCACTTTGTAGAAACATGTTACTGATTCAGGCATGCTTTTGTTTCTTTATGGGATATTCCTATGGACAAAATAGTTAAGATATATATAAACTATAATAACTTCTGTTAGCATCTTGTTTTCTCTAAAAAGCTATACCTTCCTGGGCATGATGGCACATGCCTTTAATCCCAGCACTTGAAAGAGGTAGGGAGATCTCTGTGAATTCCAGGCCAGCCAGGGATATATAGTGAGACTCCTAACCCCATGACCCCACACCCTGTGTATATGGGTGTTACTAATTGGACTTAGTGAGTTACTTAGGAAAGAGAGGGAGTTTGTGATATTGGGAGGGAGATGTATTAGGGGATATAGGAGGAGGTGGATATGAGCAAGGAATATTTTATAGACATAGAAGAAATCGTCAAAGAACAGATCTTCAGTGCTGTCAGTAAAGTACTCACAGCACAAGCTTGAATTTAGATCCTCAGGACCCATGTAAAAATATAGCAGAGTGATACCCACCTGAAATCTCAGTGCTGGGAAAGCTGGAAGCAAAGACAAGTAAGAGGGTCCCTGGGGCTCCCTGACCAGCTAGCCTAGCTTAATCAGTAAGCTCCGAGTTTGGTGGAGACTGTCCAGAAAAATAAAGAGTGATTACAGAAGACACCAAGCATTAACCTGTGACCTCCATGTGTATGTATGTGCATACACGTGAACATACTCAAAATGAATAGATCTTCATTTTCAAGATGTACTTACAAAGGTAATCTCTTCCATAG
Seq C2 exon
GTTGTCCTCCAAAAGAGTATGGAACGGGTACAGTCCTTTTTTCTGAGAAATAAATGCCGTCTTCCTCTCAAACCAAGTCTAGTGGCAAAAGAACTAAATATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030660-Pik3c2a:NM_011083:19
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:
PF0061315=PI3Ka=PD(18.5=55.7)
A:
NA
C2:
NO
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:
GCTTCTCAAGGATGCTTTGCA
R:
TTAGTTCTTTTGCCACTAGACTTGGT
Band lengths:
278-2224
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: