DreINT0114187 @ 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
chr18:27060155-27060629:+
Coord C1 exon
chr18:27060155-27060277
Coord A exon
chr18:27060278-27060415
Coord C2 exon
chr18:27060416-27060629
Length
138 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
TTTTTTTTTTTTTTTTTTAGAAT
3' ss Score
12.07
Exon sequences
Seq C1 exon
TTTTGAAAAATACTACCTGATGTGTGCCCTGACCCATAACAACAGGAATCTCTTCAAACCTGTCCAGTCCAAAAAAGTGGGAACATACAAGAGTTTCTTCTACCACATCAAATGGGATGAATT
Seq A exon
GTAAGTGTTAATCCTTCTTAAGCAGAATGGCACACTGCTTCCTGCAATTTTTAGAATTAAAGGGGGAATTTCAGTGGGACTGCTGCCAGTTTCTGCACTTAGTGACGTCTTACTCTGTTTTTTTTTTTTTTTTTTTAG
Seq C2 exon
AATAAACTTCCCTATTTCAGTGTCGCTGTTACCACTGGAGGCTATGCTTAGTCTTTCTCTCTATGGGGTCCTCAGTCAGAATGCAAACAACTCACCAGATTCCAACAAGCAACGGAAAGGTCCAGAACTTTTGGGAAAAGTTTCCATGCCTCTGTTTGACTTCAGGAGGCAAGTCATAAACAGCACCTCAAATACACAAGAATTACCTTTGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060841:ENSDART00000133547:12
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=0.190
Domain overlap (PFAM):
C1:
PF0079219=PI3K_C2=PU(29.5=97.6)
A:
NA
C2:
PF0079219=PI3K_C2=FE(40.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTACCTGATGTGTGCCCTGA
R:
AAGTTCTGGACCTTTCCGTTGC
Band lengths:
242-380
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]