DreINT0114189 @ 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
chr18:27061790-27064038:+
Coord C1 exon
chr18:27061790-27061909
Coord A exon
chr18:27061910-27063895
Coord C2 exon
chr18:27063896-27064038
Length
1986 bp
Sequences
Splice sites
5' ss Seq
TTTTGCCTT
5' ss Score
-37.01
3' ss Seq
TGTTATGTGTCCATGAACAGGTT
3' ss Score
8.7
Exon sequences
Seq C1 exon
GTTCTGTCCAGAGGCAGTAAACTGCTGAGTTTGTGGACTTCTCCTCAAGCCCTTCAGCCTGGAGCTGCAGGCAAAGGGAGGAATCCTACAGAAAAGATCATACTGCAGGTCCTTTCCTTT
Seq A exon
TGCCTTTCTTTTTGTAGAGTTTACCTGACATTAGTTGCTTCCCAAATAGCACAGTACGCTAATACACTGTGTACTTATACACTCATGAGTGGATGAGTTTTGTGTCATCCCAAATGGAACTCAGCGTTTTTTTGTTTTTGTTAATAAAATGGAGATTCAAACCATTTCTTGGTCAACGTTTAACAGTTGCCAAATTAATGAAATAAAAGACCAAACTACCAAATAGTACCTGTCATGAAGAAATAAAATTCACACGAGGGCTTATCATTTTTTCCACTGCTTTGAAATCTACTTGCGGCGGTAGCTGGATTAAATCACACCTTTTACCCACGTCACAAAAATTGTTGACTCTATGTGACAAACATGATTAATAAAAAATATTTTTATTTATTAAAACTGTTAGAAACTTTTTCTTTTCAAAGTAAAAGACAAAAAGAAAGAAAGAATAGCTGCCTCTATTTCACAATTTCTTCACTTCACTCTCACATTCAAGTTCAGGTTGCTTTATAAATATCCAGCTAATGATAAATAAATGTTTGAAAAAGTAAATAAAAACTGAAAATATTCTAAAAAAAAAAGATGATAGGAATAAAACGTGTAGATTATTTAAAAAAGGCAAATAAGTTGATTAGCCATTTCTAACTGTGTACCAGTGGCAATTCTAGTTTAAATAGTACCTGGGCGAAACCACCCCAAACATTTCCCCTCACCCATCTCTCTCAAGAAATAAAGACACTGTGGTTGACTTTACATATAATTTAAATATTTAAATATACATTTATAAATATATACATTAAAAATATATATATTATAAATACATTTAAATATATTCATTTATTTTCTATAAATATAACAATTTGTTTATTATTATTATTATTATTATTATTATTATTATTGGGTGAGGATTATTGATCAGGAGCAGCACGTGTGAGTTGTGTGGGAATGGCTTTCTGCATCAATTTGTTTTCACCAGCGTTGTTTCGGTTGGCGTGTAAAAAAGACGCCAAATGTGAATAGCCCCTAACATTTTTTTATTCTGGGATAACCACTCTACATTAATACACTTGCATCAAGTAAATCTTATCTCAAATCTTTTACTGTGGCACTTTTTTTGCACCGTCTCCCCATGCCATTCAGTAAGGTCCCCCCCCGGAGATAGCTCATATTGCCCATGCCTAAATCCACCACTGTTGTGTACAAATATTTTGCAGCCACTTTATTAAATATTCGAAGTGGACAAAATTACACTAAAGTTTTTCTGAGTCATTTAGATGAAGTATTTAATTTGTTAATGTTTCTCTCGCTCTCGCGGCTGTGATCATACAATTAATGACAGCTTTAGAAAGCAAAAGCCAAATCCTGGACATTTTAATAGATGTAGAAACCCTGGCCGGGTGCAAAAAAAGCTCTGTTTCTGAGTCTGCAGAGCACGTGAGACTGTCTGGGGGAGTTTTTGACAGTTCTCGTGCACACAGACTAAGTATCATGAAACCTTTAAATGAAAGAAGATTTTTCACTACTTAATCGCTCGTGGATGTTTGGTTATATTGTGCGGATACAAAAAAAAGTGTAAAAGGATGATAATATTTTTGAAAAAGTGTCTCTAAATCTTGGTTGATCATTAATATGTATGTATATTATATATTCATAAGTAAAGTCGATATGTGGGAAGCACTGAACTGTATGTAGGCTCCTCCATATACAAAGTTATCCCCTTTTGCAAGGCTTCTGCTACATCAATAGCTCCCCCACTGTCCACTATGTAAGCAAAGCTGTGAGTGTTGAGTACATGAAGTGTTCATCAATCCACACTTCCTTTTAGAGTTTGAATGAGTGTGTCCTCTGGGTATTTAAAGTGCACTTTTCAGTGTTAATGCACTGCTTATATTGATTATACTACAAAATGATGTAGAATAGTGCAGAATTATTTGATTTGGGGCAGACCTATTTTCCTGATTTGAATATTTGTTATGTGTCCATGAACAG
Seq C2 exon
GTTGACTTCCCCAGTCCAGCGGTGGACGTGCTCTATGTTGGTCCTCAGGAGAACGGCTGCCCCAATCCTCAGTCTCTAGACCCACTTGATCAAGACGATCGAAGTGAGATAGAAAAGCTGTGCGCACGAGCATCTACTTTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060841:ENSDART00000133547:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.281
Domain overlap (PFAM):
C1:
PF0079219=PI3K_C2=PD(24.0=90.0)
A:
NA
C2:
PF0079219=PI3K_C2=PD(2.9=8.3),PF0061315=PI3Ka=PU(12.9=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCTGTCCAGAGGCAGTAAACT
R:
CCGAAAGTAGATGCTCGTGCG
Band lengths:
263-2249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]