GgaINT0059938 @ galGal3
Intron Retention
Gene
ENSGALG00000006121 | PIK3C2A
Description
NA
Coordinates
chr5:12848510-12848991:-
Coord C1 exon
chr5:12848882-12848991
Coord A exon
chr5:12848636-12848881
Coord C2 exon
chr5:12848510-12848635
Length
246 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
GTCTTGGTTTTGGATTCCAGGTT
3' ss Score
7.22
Exon sequences
Seq C1 exon
ATGCAAGTCCATCGAGTCCTACCTCAGGCAAAGTGGGTGGAGAAGTGAAGCTATCCATATCATACAGAAATAGCACTCTGTTTATCATGGTGATGCACATCAAAGATCTG
Seq A exon
GTAAGTAAGAGAAGAGAGAAGCTCACTGCCAAAAACTATTTTGTCAATTACCTTCTTGACTTACGATCTGTGTAGGAATGATGAGAGATATCTCTCTTCCTCCAAACTCTCCCACTGCAAACTTACATCAGCTGCTGCTTTTGATCTGCTTGGTGGTTAAGACTAGCAATTCGAAAGTAGTCGTGTAAGTGTGCAATAACTACTTTTCCAACTCATCTTCTAACACGTCTTGGTTTTGGATTCCAG
Seq C2 exon
GTTACAGAAGATGGTGCAGATCCAAATCCCTACGTAAAAACATACTTATTGCCAGACACGCACAAAACATCCAAACGCAAAACCAAAATCTCCCGGAAGACGAGAAATCCAACTTTCAATGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006121:ENSGALT00000009877:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.297 A=NA C2=0.190
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
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCAAGTCCATCGAGTCCTAC
R:
CATTTCATTGAAAGTTGGATTTCTCG
Band lengths:
236-482
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]