DreINT0114188 @ 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
chr18:27060416-27061909:+
Coord C1 exon
chr18:27060416-27060629
Coord A exon
chr18:27060630-27061789
Coord C2 exon
chr18:27061790-27061909
Length
1160 bp
Sequences
Splice sites
5' ss Seq
GGAGTAAAT
5' ss Score
-0.17
3' ss Seq
TCCTGCTGCTTTGTTTCAGGGTT
3' ss Score
0.47
Exon sequences
Seq C1 exon
AATAAACTTCCCTATTTCAGTGTCGCTGTTACCACTGGAGGCTATGCTTAGTCTTTCTCTCTATGGGGTCCTCAGTCAGAATGCAAACAACTCACCAGATTCCAACAAGCAACGGAAAGGTCCAGAACTTTTGGGAAAAGTTTCCATGCCTCTGTTTGACTTCAGGAGGCAAGTCATAAACAGCACCTCAAATACACAAGAATTACCTTTGGGA
Seq A exon
GTAAATTGCACATTTTATGTGTTTGATTAATATTTGTTTTGTTTATTTTTCATGTAATTTATTCAGTGATGAGATGGATGATTTGGCTTTTAATGGTTAGATGGCTTGATAAGTGGATGAACTGAATAGTGGATGCATGTGTATGTGTATGGATGGATGAACTCTTACTGATTGATAAAATAATTTTGGCAAGTTTTATAAGATTGATTGTGGCATAATGGATGGATGGATGGATAGAGAGATTAATAAATAAAAGGATGGATGATACATGGGTGAATAGATTTATTGATGGATGGATGGATAGATGATAGATACGTGGACGGGTGGACTCTCACTGATACATAGTATGATGGATAAATAAGTGGGTCAATTGATTGATGGATTGTTGGATAGATGGATAAATGCATGGATAGATTGAAAATGGATAAAAATGATTAATAAAATACATTGTTACATAAATGGTTAAGTTCTTAGTTACATGGATCATGGGTAAATTTGTGAATGTTAAATAACCGGATAGCTGCATCAACTGAGGAATTGATAGATAAATAGATTGATGGTTAATGCATGGGTTATGGATGGATGGAAGTAGGTAAGAAGAGATGAATAATTAAAATTATGAATAGATGGATGGATACATTGATGAATATATTTATTAATGGATGGATAGTCTCTAATAGAAAATAGGATTGATAATAAGTGGATCAGTGGATTAACAAATTAATAATGGATTTAGATGGATGGATAAATGCATGGATGATAGATTAATATTTTGATCGATGGAGGAAAGGGGAGATGGAGTGATAAAAGGATGATTACATGGGTGAATAGATTAATGGATGGATGGATGGGTAAAAAAACTATGGGTGGATAGAATGGAATGACGATAGGTATATGATTGATGAAATCTAAATGGATCAATTGAAAAAAGCATGGATGTGTAGATAAATGGATAGATGGATGCATACTAGATTATAGATGGAAAGACAGGTCTATAAATAGATTTTCAAATGTATGCTTAAGAATTGTACAAAGAATAAGTTGTTACTTCCGGTATGACTGTGCATGATAGATATATTAGAGCATGCTTGAGTTAATGAGTCTGGCACAGTTTTTGAATGCTGTCTCTTAAGTTTGTCTTCCTGCTGCTTTGTTTCAGG
Seq C2 exon
GTTCTGTCCAGAGGCAGTAAACTGCTGAGTTTGTGGACTTCTCCTCAAGCCCTTCAGCCTGGAGCTGCAGGCAAAGGGAGGAATCCTACAGAAAAGATCATACTGCAGGTCCTTTCCTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060841:ENSDART00000133547:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.190 A=NA C2=0.125
Domain overlap (PFAM):
C1:
PF0079219=PI3K_C2=FE(40.3=100)
A:
PF0079219=PI3K_C2=FE(25.9=100)
C2:
PF0079219=PI3K_C2=PD(24.0=90.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATAAACTTCCCTATTTCAGTGTCGC
R:
AAAGGAAAGGACCTGCAGTATGA
Band lengths:
334-1494
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]