DreINT0114208 @ 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
chr18:27085912-27086225:+
Coord C1 exon
chr18:27085912-27086021
Coord A exon
chr18:27086022-27086099
Coord C2 exon
chr18:27086100-27086225
Length
78 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
GTTCTTCTCCCTAAAACCAGATG
3' ss Score
6.51
Exon sequences
Seq C1 exon
ACATGCCTCCAGTGAGTCCCACCACAGGCCGTGTGGAGGGTGAGGTGAAGCTGTCAGTGTCCTACAGAAACAGCACACTTTTCATCATGGTCATGCACATTAAAGACCTG
Seq A exon
GTGAGAAATAGCACAAGCTTCTGTCTTCAAGAAGACTCTAGTTTCCAAAATCTCATCTGTTCTTCTCCCTAAAACCAG
Seq C2 exon
ATGTCCAATGACGGAGCAGACCCAAACCCTTATGTGAAAACATACCTTCTCCCAGACCCCCACAAAACTTCCAAACGCAAAACAAAGATTGCGAGGAAGACAAGGAACCCAACATTTAATGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060841:ENSDART00000133547:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.324 A=NA C2=0.262
Domain overlap (PFAM):
C1:
PF0016825=C2=PU(11.2=27.0)
A:
NA
C2:
PF0016825=C2=FE(46.1=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:
AGGTGAAGCTGTCAGTGTCCT
R:
GGTTCCTTGTCTTCCTCGCAA
Band lengths:
177-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]