RnoINT0108919 @ rn6
Intron Retention
Gene
ENSRNOG00000000065 | Pde6b
Description
phosphodiesterase 6B [Source:RGD Symbol;Acc:1311039]
Coordinates
chr14:2333048-2333444:-
Coord C1 exon
chr14:2333335-2333444
Coord A exon
chr14:2333136-2333334
Coord C2 exon
chr14:2333048-2333135
Length
199 bp
Sequences
Splice sites
5' ss Seq
GAAGTAGGC
5' ss Score
3.93
3' ss Seq
TAAAATAAAATATACAACAGATC
3' ss Score
2.69
Exon sequences
Seq C1 exon
ACAGGCAAACTGAAGAGCTATTACACAGACCTAGAGGCCTTCGCCATGGTTACAGCTGGCCTGTGCCACGACATCGACCACCGTGGCACCAACAACCTGTACCAGATGAA
Seq A exon
GTAGGCTGTGGGGAGGGCAGGCTCATGGTGGGCGTGGTAAACCATAAGTCACGTGCCCTTAGGGTGAGTCTTTGCAGTCTGGCAATCAGTACTGAGATGGACCACCTTGAAGGCACAGTGCCAGATGGGTCAGACCTCATCCTGCTGCCTTCTAACATGGTTTATGTTGTGCTTTCTTTTAAAATAAAATATACAACAG
Seq C2 exon
ATCTCAGAATCCTCTAGCCAAACTACATGGCTCCTCAATTCTGGAAAGGCACCACTTGGAGTTTGGGAAGTTTCTGTTGGCAGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000065:ENSRNOT00000000077:14
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:
PF0023314=PDEase_I=FE(14.5=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(11.6=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:
AGGCAAACTGAAGAGCTATTACACA
R:
TGCCAACAGAAACTTCCCAAACT
Band lengths:
190-389
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]