BtaINT0109256 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000445 | PDE6C
Description
phosphodiesterase 6C, cGMP-specific, cone, alpha prime [Source:HGNC Symbol;Acc:HGNC:8787]
Coordinates
chr26:15006088-15006361:+
Coord C1 exon
chr26:15006088-15006162
Coord A exon
chr26:15006163-15006277
Coord C2 exon
chr26:15006278-15006361
Length
115 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAAA
5' ss Score
-4.46
3' ss Seq
GAATTTCTCTCTCTTTCTAGCCT
3' ss Score
9.05
Exon sequences
Seq C1 exon
GTAGCACTCCTGGTTGCAAATGAATTTTGGGAACAAGGAGATCTGGAGAGAACAGTGCTGCAGCAACAACCCATT
Seq A exon
GTAAAAACCTTGACATAAAAACGCACTACTGATTAAAAATTATCGATACAAATCAGTCTGTTTTGTCCACTGGATCTTAGAAAATTATCTTTAAAGAATTTCTCTCTCTTTCTAG
Seq C2 exon
CCTATGATGGACAGAAACAAAAAAGATGAACTACCTAAACTTCAAGTTGGATTTATTGACTTTGTCTGTACTTTTGTATATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000445:ENSBTAT00000000569:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.107
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(9.6=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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCACTCCTGGTTGCAAATGA
R:
AAGTACAGACAAAGTCAATAAATCCA
Band lengths:
146-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]