DreINT0114230 @ 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
chr11:23363684-23364214:-
Coord C1 exon
chr11:23364078-23364214
Coord A exon
chr11:23363854-23364077
Coord C2 exon
chr11:23363684-23363853
Length
224 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
ATTCTGTTGCTTTTTTACAGGCG
3' ss Score
9.59
Exon sequences
Seq C1 exon
GCATGGTAGAGATGATTCCCAGTGCAGAAACCCTGAGGAAGATCCAGGTTGAGCATGGAGTAACAGGTTCTTTTAAGGACCGGCCTTTGGCAGACTGGCTGCAGAAACACAACCCTACTGAGGAGGAGTATGAAAAG
Seq A exon
GTACTGTATACCCTTATCCTCATTCAGCATTAAGACTAATTTGCTAAGCCAAAATGCACACGCAAACTGTTTTGCTTTAAAAATACACCAGTGCATGGTTGCGCTGGGTTGCATCATGTTTCTAACTTTGCATATCTTAATATATAAATGTGTTTAGGGATTCGTTGATTCAAGGCCTTGTTGTGTCGATATGTTTAAAACCTAATTCTGTTGCTTTTTTACAG
Seq C2 exon
GCGGTGGAGAACTTCATCTATTCGTGCGCTGGTTGTTGTGTGGCCACATACATTCTGGGCATCTGTGACCGGCACAATGACAACATCATGCTGAAGACCAGCGGACACATGTTCCACATTGACTTTGGCAAGTTCCTGGGGCACGCACAGATGTTTGGCAACATTAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086927:ENSDART00000124810:23
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(20.8=100)
A:
NA
C2:
PF0045422=PI3_PI4_kinase=FE(25.9=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:
TGGTAGAGATGATTCCCAGTGCA
R:
GTTGCCAAACATCTGTGCGTG
Band lengths:
296-520
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]