RnoINT0111235 @ rn6
Intron Retention
Gene
ENSRNOG00000020479 | Pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:RGD Symbol;Acc:1310389]
Coordinates
chr1:185297525-185298462:+
Coord C1 exon
chr1:185297525-185297636
Coord A exon
chr1:185297637-185298316
Coord C2 exon
chr1:185298317-185298462
Length
680 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
CATTTCTGTGAATTTTTCAGGTT
3' ss Score
9.55
Exon sequences
Seq C1 exon
GTTTTTAACATGTGGAACTAAACTTCTCTACCTTTGGACTTCATCACATACAAATTCTATTCCTGGAGCAATCCCCCAAAAAAGCTATGTCATGGAAAGAATTGTGCTACAG
Seq A exon
GTAATGGTGGTTCTTGATACATGGAGGGCTTTAAATGTGAGTGTCCTTGTAAAAAGTGTTTGTGGATTCCATAATGTGGATTGTTATTAAAGAGCCTAATTAATCTTGTTTTAATCTCAGAATCTGTCTTCAATTTAAGTGTTAATAAAACCATTTCCAGTTTCTGAGAGAGTAAAACATGCTGTTTCTATCCCCAAAAATATAAACATGCTTTTGAGAATGATGAACTATTGTTGGTAATCACTGTCAACAGGAAGAAGTACTAGCTTTATACTCAATATAAATTTTTGTAGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAAGCACAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAAGAAAAAAATTTTTTCTAGATTGTTATGAAAAATCGGTTTCCTGAAAGAAAAAGATATCAATATGGAAAATTTGGATTATAATTTGAGTGATTTTTTTTTTCCAGGCAGTGGTGGAGCATGCCTTTAATAGCAGGACTCAGGAGGCAGAGTCCTGAGTTTAAGATCTTTGAGTTTAAGGTCAGCCTGGTCTACAGAGTGAGTTCCAGTACAGCCAGGGCTATGCAAAGAAATTCTGTCTGGGTAAACAAACAAACAACCAAATACACACATACACTTTTTTTTCACTCATTTCTGTGAATTTTTCAG
Seq C2 exon
GTTGATTTTCCTTCTCCTGCATTTGACATTATTTATACATCTCCTCAAATTGATAGAAACATTATACAGCAATACAAGCTGGAAGCACTGGAGAATGAAATAAAGGGAAAACTTCTGGATATTGTTCACAGAGATTCATCATTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020479:ENSRNOT00000055120:15
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:
PF0079219=PI3K_C2=FE(26.2=100)
A:
NA
C2:
PF0079219=PI3K_C2=PD(3.5=10.2),PF0061315=PI3Ka=PU(12.5=46.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTAACATGTGGAACTAAACTTCTCT
R:
CCAAATGATGAATCTCTGTGAACA
Band lengths:
255-935
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]