DreINT0111836 @ danRer10
Intron Retention
Gene
ENSDARG00000011671 | pde6b
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:ZFIN;Acc:ZDB-GENE-090421-2]
Coordinates
chr21:20326445-20326662:+
Coord C1 exon
chr21:20326445-20326511
Coord A exon
chr21:20326512-20326614
Coord C2 exon
chr21:20326615-20326662
Length
103 bp
Sequences
Splice sites
5' ss Seq
TTTGTAAGT
5' ss Score
7.4
3' ss Seq
TTTTTTATTGTTTGTTGAAGATT
3' ss Score
7.39
Exon sequences
Seq C1 exon
AAATCCAACTGCAGATCATTGGGCTTTGGCTAGTGGATTACCCACATATGTAGCAGAGAGTGGATTT
Seq A exon
GTAAGTGATTTCTTTTTTCGACTTGGTGCAAAGTATGATGGACTTTTAAAACGTTGAATGTGTATTTATGCATTTATTGACTGTTTTTTATTGTTTGTTGAAG
Seq C2 exon
ATTTGCAACATCATGAATGCAGCATCAGAAGAAATGTTCAAGTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011671:ENSDART00000135816:7
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(12.4=100)
A:
NA
C2:
PF0159021=GAF=FE(8.5=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:
AAATCCAACTGCAGATCATTGGG
R:
TGAAACTTGAACATTTCTTCTGATGC
Band lengths:
114-217
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]