DreINT0114218 @ danRer10
Intron Retention
Gene
ENSDARG00000086927 | pik3c2b
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta [Source:ZFIN;Acc:ZDB-GENE-050309-145]
Coordinates
chr11:23407444-23408156:-
Coord C1 exon
chr11:23408034-23408156
Coord A exon
chr11:23407612-23408033
Coord C2 exon
chr11:23407444-23407611
Length
422 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TCTTTTTTTTTCCACAACAGAGT
3' ss Score
8.27
Exon sequences
Seq C1 exon
CTATGAAAATTTCTTCCTGTCCTGTTCTCTCACCCATGGCGGCGTGGAGCTTTGTGCCCCTCAACACACCAGTAAACAGTCGGTCAGCAAATATCTCTTCCACCTGGTGGTGTGGGACCAGAG
Seq A exon
GTGAGCCTGATGCCAATTTACATGCTTCACAGTACAATGAATACATCTACTTTGCATTGTCGAAAAAATAAAAATGGCCTAATGTTTGAGCTTGTTAGTTTACTTCAGATGTCAACTTCGAGAATAGCTCGCCCAACTCCACTTCCTGTGGCTGTTTTTGCACTTCTTACTGTAGAGTTTAGGTATTGTTCTGGGATATTTTAGTGCGCAATTGTCATTTATTTCCTTTTTCCTGTTGAACATATATTTAGGTTCATGTATGTAGGTGTGTATATGCATTATTATAGCTCCAAGTGTAGGTGTTAAAAAAGGTGGTATTTGTGTTCTTAATTCTAAATTTGCCTGTTGTGGAGGCCATTTTGCTATTTGGAAAGTGTGATTCTGACTGCTATTATTTTAATCTCTTTTTTTTTCCACAACAG
Seq C2 exon
AGTTTGCTTCCCTGTTCAGATCAACCAGTTGCCGAGGGAGTCACAGCTGACAGTTACGTTGTATGCCACCCCTTTACCACCCCCTGGAGGAGCGGAGGAGAAGAGCAAGCAGAAACGCAGCATTGAATCTTTGGGTTGGGTCACCATGCCTTTATTCAACTTTAGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086927:ENSDART00000124810:12
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=0.184
Domain overlap (PFAM):
C1:
PF0079219=PI3K_C2=PU(29.1=97.6)
A:
NA
C2:
PF0079219=PI3K_C2=FE(39.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTATGAAAATTTCTTCCTGTCCTGT
R:
AAAGTTGAATAAAGGCATGGTGACC
Band lengths:
286-708
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]