DreINT0114186 @ danRer10
Intron Retention
Gene
ENSDARG00000060841 | pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:ZFIN;Acc:ZDB-GENE-030328-39]
Coordinates
chr18:27058141-27060277:+
Coord C1 exon
chr18:27058141-27058360
Coord A exon
chr18:27058361-27060154
Coord C2 exon
chr18:27060155-27060277
Length
1794 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
CATTCCTTTCTGTTTTCCAGTTT
3' ss Score
9.4
Exon sequences
Seq C1 exon
GTTACTCTAGCCCTGTAGAGGAGAGTTTAGCAGTGCTCACAGATGCTGTCTATGAACTCGCCAAGCTCTACCTTCAGTCTTTCTGCCCGATTAGCCCTGGTTTCATGATAGAAGAGCACAAAGAAGATGAGAGGGACAGCAAAGAGGCCTCGGGCACCACTGAACACTTACAGTTCACACTGTTTGCCGTTCATGGCATTCCTGCTACCTGGGTCAGCAG
Seq A exon
GTAAATACTGTCGTCTCTCTTAGTCAGTAGAAGATGGTCTAAATTTCACGCTAATACTTCAATAATACAAAAAATGGATTTGGTTTGGGTTTCTCTCACAGTCCAGAAAAATGCTAAATGATGTTTAATTCTCTTCGGAATGATAATGACTCTGTTTAACAAACTTGCAGCCAAGGTAAACTTCTCTATTACTTTCAAAGCATTGCCTGGGTCCATATTCATTACACTGTTATTTCCTCTTAGATAATTTGAGTAATTTCGGGTCTGTGTTTTCTTGGAGCAATTGACTTCAATAAATGATATCTGGACCATTTAATGTTTAACTGAACTTTGAGAGATGTAGAATCACTTTATTCCTAACGCACTACACTCGAAATCAACTTTTTTTTTTAGCATTTCGAAGCACATTAGGCCATGTTGTAAGGGAAGAAGGTTTTGCCCTCTGATAATTATTATTTTTGGAATGTCATGATGTAGTATATGTGATCTCATTACTTGGGATTTTGACATTTGGCATATGTTGAGACTTGCGTATTTGCTCTGTCACTTAAAATGGTGTTTAATTAAAAATGATGAAAAACTTTAACATTGCTTTGATACTCATTAACCATTAGAAAAAGATGGCTCAAAGAGCTAGTCAATTGGCAGTTTTTGTGGCCAAAATAAAGCATGGATGCAATAACTTTATCAATAATCTAATCTATCAATAATTTATCAGTAATCACTTTAACAAAAAATACAACATAATATACACATATTTCAGCATTATTGAGACGACATCTTAAGCACTAAATCAGTGGATTAGAATGAACTTTAAAGCATCATGTGAAAGTCAAGTTTAAAGTAATAGCTGCTACATGTGTATTATATTGCAACAGTATAATATTATAATACATTAATGTATAAAAATACAGCTTTACTGTGTTTGATCAAATAAATGTAGCCATGAGACATTACAAAACGTCTTTTAATCTCACTGACATTTTGAGCTTTTGCTTTTGTGCATAGATGTGTTCAGTTCCTTCGGAAATGTAGCTTGCATGTTATTTTGATAGACATCCTGTTGAATAAAAGTCAATTTAACTACTCTTAATTCTCATTTTAATTTTGGTAGACTATTAGGTTTTAATTAGCAGAACAGGTTGACATGCTTGCAAAATTATTATTGTTAGTAGTTTGTCTGTTGAGCGAGAATGACAGTGAATTGTTGGATAGGCCATTCTGTGTAGCTAACTTTATCTTGAGTGCTCTTATTTATTGCCACTGAAAAAGCAGCACTTATCTGCCATTGCTAAAATAGACTTGACTAGTGATTTCCATACAGAACAAGCAGAGCGATAGGGGTGTGATGTGTTTGGAGACAGAAGAGGGTTAAAGTTCTGCATCACTTGGTTCTATGTTTTGATCCAGTTCCCTTAGGGGAGACGCTGTTATTTTTTTACTGTTATTTTTTTACCCTTGAGAATTCTTTGTACCACAGCGCTTCATCATGAAGCCTATTTATAGCAGCATGAAATATTTTCACAGACCACACCAAAACACATTCAAAATATGTGTCCATGTGCCATTTGTAAATTTACAAATATTTGAAGTTTGATAAACGGATTTCCATAATTTGCCAAAGTATTTTAAAAAATGCATGCAAAGCATTTGTGTTCACATGAAGCTACAGTCAGTGCAAACATTTTTCAATTAGTTTTCAATATAAAGTTTGGAGATGAGTAAATACCAGACAGGCTAATGTTTTGTTCCTATTTCGTGCCATAGAGTAATACATTCCTTTCTGTTTTCCAG
Seq C2 exon
TTTTGAAAAATACTACCTGATGTGTGCCCTGACCCATAACAACAGGAATCTCTTCAAACCTGTCCAGTCCAAAAAAGTGGGAACATACAAGAGTTTCTTCTACCACATCAAATGGGATGAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060841:ENSDART00000133547:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.162 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0079219=PI3K_C2=PU(0.1=0.0)
A:
NA
C2:
PF0079219=PI3K_C2=PU(29.5=97.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTACTCTAGCCCTGTAGAGGAGA
R:
ATTCATCCCATTTGATGTGGTAGA
Band lengths:
342-2136
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]