RnoINT0108925 @ rn6
Intron Retention
Gene
ENSRNOG00000000065 | Pde6b
Description
phosphodiesterase 6B [Source:RGD Symbol;Acc:1311039]
Coordinates
chr14:2356520-2357284:-
Coord C1 exon
chr14:2357132-2357284
Coord A exon
chr14:2356610-2357131
Coord C2 exon
chr14:2356520-2356609
Length
522 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
GTTATTAATTGTTGTTTCAGGTT
3' ss Score
7.98
Exon sequences
Seq C1 exon
TGTCCTCACTTCAGCCCATTTGCCGATGAGCTCACCGACTACGTGACAAAGAACATTCTGTCCACGCCAATCATGAATGGCAAAGATGTTGTGGCTGTGATTATGGCAGTGAATAAATTGGATGGTCCATGCTTCACGAGCGAAGACGAAGAT
Seq A exon
GTGAGTGCTGGAAGGTGTTCAACACACAGCTCTTCCCACGGCTTTGCCCACTGTGTCTGCATATTCACCACCTCCCCGCACGCCTTTGCTCATCTGCGTGCAATTATCTCTCTCTAGTCATATGCTTGTGTGGGCCATGCCTCTTGACAAGTCTAGGTCTGAGCTGTGTCCCTATGCTAATCTGAGTGTGTGCGCTGTGCTTATCCAGAGGCATCAGCCATGGCCACACAGAGATTTGAAGAATCTCTGTGTGTCTCTGTTTATCTGGGTGTATGGGCTATACCCGAGGCATTCATCTTTGTGCATATAACTCATGTCCCTTTGTGTGTGATCCATGTTCCTGCCCCACAAGACTGAACCTTTGTGTGCATGTCCACACCCATGAGTGCTAACTATAGCTTATCAGTGTGCTTGCCTGTGTGTGGCACTTCCTCCAGGACCATTGGGGTACGCTTCTCTTCTGTCCATGTGTCCTTGAACATCTGGATTTCTGACTCATGCTGTTATTAATTGTTGTTTCAG
Seq C2 exon
GTTTTCACGAAGTACCTGAATTTTGCTACATTAAACCTGAAGATCTATCACCTAAGCTACCTCCACAACTGTGAAACACGCAGAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000065:ENSRNOT00000000077:2
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=FE(33.3=100)
A:
NA
C2:
PF0159021=GAF=PD(8.0=40.0)
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:
TCCTCACTTCAGCCCATTTGC
R:
GCCTCTGCGTGTTTCACAGTT
Band lengths:
238-760
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]