DreINT0114193 @ 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
chr18:27071588-27072649:+
Coord C1 exon
chr18:27071588-27071682
Coord A exon
chr18:27071683-27072468
Coord C2 exon
chr18:27072469-27072649
Length
786 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAG
5' ss Score
5.75
3' ss Seq
GGGTGTCTATTTGTGCATAGGCT
3' ss Score
6.8
Exon sequences
Seq C1 exon
GCAGTGAAGTTCGAGTGTCACCTTAACAATGCCTTGGTGAAGTTTCTGCTGTCTCGAGCTCTGGGAAATGTCAACATTGCACATTATCTTTACTG
Seq A exon
GTAAAGTTTCGTTCAAATATATAATTGTTAGTTTTACAATTTCAAAAAAATAAATAAATAAATAACAAATTTCCTGCTTTTATAGACAATATAAAGCTGTTATTTTAAATATGGTATACATGTATGCTATTGTACCTAAAAGATTTTAGTTGACCTTTCCAAACGCAAATGATACTAGCCATTGAAGACTTTGAGGACAACACATACACTTAATACACAAATACACTTTATTGAACATGTACACATAAACATTACCTGTATACTACATAACTGCAGGTTATCTATGTTTATATATAATAACTTTAACAGTAAAAGCTATTTAGTTACTAGTCACTAAAGTTATGGTTACGAATAGCCTTAACCTTTCTGATTTTGAATGTAATGCAATAATGTGCACCTTTTTGTAAAGCTGCTTTGAAACAATAATTGTTTTAAGTAGTGCTAAATAAATAAACTTGATTTAAATTGCAAATTAGGATTCAGTATTCCAATTGTTTTTAATCTATATTGAATGTCTACAAAATCAAAACTTTCGAACATTTAAAATCTTTGAATAAATCTTCGAAATACGTTTGTCAGTATTGTTTATTTTTGTTCCTTACTTTTACATTGTGTAAATGTTTAAATTGCATAGATTTTCAACAGAAGAACAAAACTGATGAAAGAAATGAAGTACAAAATAATTTTGGTGTTAAATTATGTAATATTACACAGTGAAGTCATACTGTTTTTAGTGTAAGAGTCCTTGTTGATTTTCACATTTACTGGGTGTCTATTTGTGCATAG
Seq C2 exon
GCTGCTGAGGGATGCAGTGCAGGACCCGGCGTTTGGTCAGCGTTATGAGCGGATCCTCTGTGTGCTGCTGTGTCTGTGTGGGACCGGACTGAGGGCTGAGCTGGAGAAGCAGACCCGACTTGTGCAGCTGCTTGGAGCTCTGGCTGAAAAGGTTCGGCAGGCGAGCAGCTCAACCCGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060841:ENSDART00000133547:18
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:
PF0061315=PI3Ka=FE(16.7=100)
A:
NA
C2:
PF0061315=PI3Ka=PD(18.8=57.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGTGAAGTTCGAGTGTCAC
R:
CTGTCGGGTTGAGCTGCTC
Band lengths:
276-1062
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]