DreINT0114198 @ 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
chr18:27078139-27079588:+
Coord C1 exon
chr18:27078139-27078268
Coord A exon
chr18:27078269-27079451
Coord C2 exon
chr18:27079452-27079588
Length
1183 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
TTTTTTGTTAATTGACGCAGGCA
3' ss Score
5.31
Exon sequences
Seq C1 exon
GTTGGAGAAGACCTGCGGCAGGACATGTTGGCACTACAGATGATTCGGATTATGGATCGGATCTGGCTTCAGGAAGGACTCGACCTGCGTATTGTTAACTTTAAATGCATCTCTACTGGGAAAGATAAAG
Seq A exon
GTATGTTCCACTCTACCAAATTTACATTTGACAACTAGGATACATTCATTCATTCATTTTCTTTTCGGCTTAGTCCCTTTATTAATCTGGGTTCGCCACAGCGGAATGAACCACCAACTTATCCAGCATATGTTTTACGCAGCGGATGCCCTTCCAGCTGCAACCCATTTCTGAGAAACATTTCTACACACTCATTCACACTCATACACTACGGACAATTTAGCCTACTTAATTCACCTGTACCACATGTCTTTGGACTGTGGGGGAAACCGGAGCACAAGTAGGATACAATTGTTATATATTTAAATACTAAAATAATTTACAGTACACGATTTTGGAGGTCAGTAGGAATTTTGTTTATCTGCTGGAAGCTGCATTTATTTGCATTTATAATATGACAAAATATTAATTTAACATAAGTTTTCTGTTTATTTCCATTCAAATATAAATATATCATTTATTTACTAAAGCTTTGTCACCAGAAATTATACTTGATTTCAGCGTCATACAAGGGTGTGGAATTGGCCTGGTCGGAGGGACTTTTGGAGCATGAGACGGGATTATTATTTGTATTAAGTGTTTATTTTATATTATTAGTTGATTTATACAAGTTTTTAAAAGCGCTAAACAGAATTTGTGCTGTTTAATGCATGTACTAGGGATGTATGTCCCCACCAATATCAAGAACAAATTAACACCATCGCCGTCATATGATCTTTCAGAAATATGTGGATTTGATGTTTAAGAAACTTTAATAATGAATAATGTTCAAGGATTTCCTTATTTTATCTTATGATTTCTTATTAAATAGAAACAGTATTTGAATAGCATTTACACTCACTTTTTAAAAATTGGTGGCATTTTTCTTTTTAGATGATTAGTCTCTTGCTAATTTTTAAATGTTTGCTTAACTTTGTTTAGGGTTTGTTGTATCATTTTAGTATCTTGTATGCATGTTGTGTTGATTTGTATTGAAAGCGCTTTGAGAAACTAACTTTTATAGGGGCTATATGAAATAAATGTATTATTGTAGGTAAACCTCACTCCCATGACCTCTAAAGGCACTCTAGAGAATGTTGATAACAGGCATGCAAACATAATTATGAGTTTTTGATGAAATATGAACATGATAGGTTAATTTATTTCTCATATTATGGGTTCTTTTTTTTGTTAATTGACGCAG
Seq C2 exon
GCATGGTGGAGTTGGTACCATCTTCTGAAACGCTGAGAAAGATTCAGGTGGAGTATGGAGTGACGGGTTCCTTCAAGGACAAACCTCTTGCTGAGTGGCTTCGCAAGTATAACCCTGCTGAGGATGAGTATGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060841:ENSDART00000133547:22
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:
PF0045422=PI3_PI4_kinase=FE(19.9=100)
A:
NA
C2:
PF0045422=PI3_PI4_kinase=FE(20.8=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:
GTTGGAGAAGACCTGCGGC
R:
TCATACTCATCCTCAGCAGGGT
Band lengths:
263-1446
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]