RnoINT0108945 @ rn6
Intron Retention
Gene
ENSRNOG00000016593 | Pde6c
Description
phosphodiesterase 6C [Source:RGD Symbol;Acc:1309844]
Coordinates
chr1:256874029-256874271:+
Coord C1 exon
chr1:256874029-256874099
Coord A exon
chr1:256874100-256874187
Coord C2 exon
chr1:256874188-256874271
Length
88 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAAG
5' ss Score
-3.19
3' ss Seq
GGATTCACTTCTCTTTCTAGCCT
3' ss Score
6.82
Exon sequences
Seq C1 exon
CACTTCTGGTTGCAAATGAATTTTGGGAACAAGGAGATCTGGAAAGGACAGTGCTTCAGCAGCAACCAATT
Seq A exon
GTAAAGACCGTTTCGTAATTTGTTACTTATTAGAAACCACCCCTAAGGCCCTGGAAAACGACTAAAAAGGATTCACTTCTCTTTCTAG
Seq C2 exon
CCTATGATGGACAGAAACAAAAAGGGTGAACTCCCAAAACTTCAAGTGGGATTCATTGATTTTGTTTGTACTTTTGTATATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016593:ENSRNOT00000022317:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.208 A=NA C2=0.214
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(9.2=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(10.8=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:
CACTTCTGGTTGCAAATGAATTTTGG
R:
AGTACAAACAAAATCAATGAATCCCA
Band lengths:
143-231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]