RnoINT0111277 @ rn6
Intron Retention
Gene
ENSRNOG00000029938 | Pik3c2b
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta [Source:RGD Symbol;Acc:1306541]
Coordinates
chr13:49900969-49901625:+
Coord C1 exon
chr13:49900969-49901138
Coord A exon
chr13:49901139-49901468
Coord C2 exon
chr13:49901469-49901625
Length
330 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
TGTATGTTCCCTCCGCCCAGGGA
3' ss Score
7.87
Exon sequences
Seq C1 exon
GCTGTGGAGAACTTCATCTACTCTTGTGCCGGCTGCTGTGTGGCTACATACATCTTGGGCATCTGTGACAGACACAATGACAACATCATGCTGAAGACCACGGGCCACATGTTCCATATAGACTTCGGCCGCTTCCTGGGCCACGCGCAGATGTTCGGTAATATCAAGAG
Seq A exon
GTAGGTGGCTTCCTGTGTGGAAGGCCGGCGTAGTTCAGAGATGGGGCACAAGACAGTGACTGGAGCAGCTGAGCGTTAGGGCACTGAGCAGCTCTGGAGACCAGAAAACTGATAAGGAGCTCAAGTTTGTGCAGAGCTTAGCTGTTCTTTCTCACAGAGGACCAAGCAAAGCCGTAGGAAGCCGAGAACCAGTGGGGAGCTGGGAGAAAGAATTACTAGACCGGGTCGGAACACATGGTGAGGGGCAAAGGAAAGCAGACCTCGATGGAGCTTACAAGGCGACCTCCCTTCTCCCTGTTGACCTCACACGTGTATGTTCCCTCCGCCCAG
Seq C2 exon
GGACCGCGCCCCGTTTGTCTTCACCTCAGACATGGCGTATGTCATCAACGGGGGTGACAAGCCTTCCAGCCGCTTCCATGATTTTGTTGACCTTTGCTGCCAAGCCTACAACCTCATTCGCAAGCACACCCATCTCTTCCTCAACCTCCTGGGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000029938:ENSRNOT00000042125:23
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(25.9=100)
A:
NA
C2:
PF0045422=PI3_PI4_kinase=FE(24.1=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:
GCTGTGGAGAACTTCATCTACTCT
R:
AGGCCCAGGAGGTTGAGGAA
Band lengths:
326-656
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]