RnoINT0108929 @ rn6
Intron Retention
Gene
ENSRNOG00000000065 | Pde6b
Description
phosphodiesterase 6B [Source:RGD Symbol;Acc:1311039]
Coordinates
chr14:2340867-2341168:-
Coord C1 exon
chr14:2341028-2341168
Coord A exon
chr14:2340942-2341027
Coord C2 exon
chr14:2340867-2340941
Length
86 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CTCTCCTCTTCTCTTTCCAGGAA
3' ss Score
13.37
Exon sequences
Seq C1 exon
GTGCTTCTCTGGTCAGCCAATAAGGTATTTGAAGAACTGACAGACATTGAAAGACAGTTCCACAAGGCCTTCTACACTGTCCGGGCCTATCTAAACTGTGACCGGTACTCAGTGGGCCTCCTGGACATGACCAAGGAGAAG
Seq A exon
GTGAGGTCTCAAACTCTCAGGCCCCTCCTCCCCGGCGTGACCAGCTCATAAGCTGAGCGTTCCCGTCTCTCCTCTTCTCTTTCCAG
Seq C2 exon
GAATTCTTTGATGTGTGGCCTGTGCTGATGGGGGAAGCCCAGCCATACTCGGGCCCACGAACACCAGATGGCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000065:ENSRNOT00000000077:4
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:
PF0159021=GAF=PU(18.0=68.1)
A:
NA
C2:
PF0159021=GAF=FE(13.5=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:
GTGCTTCTCTGGTCAGCCAAT
R:
AGCACAGGCCACACATCAAAG
Band lengths:
167-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]