DreINT0111821 @ danRer10
Intron Retention
Gene
ENSDARG00000011671 | pde6b
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:ZFIN;Acc:ZDB-GENE-090421-2]
Coordinates
chr21:20330915-20331256:+
Coord C1 exon
chr21:20330915-20331061
Coord A exon
chr21:20331062-20331148
Coord C2 exon
chr21:20331149-20331256
Length
87 bp
Sequences
Splice sites
5' ss Seq
GAGGTCCGT
5' ss Score
4.55
3' ss Seq
TTGTTTTTTTGTAAATAAAGGTT
3' ss Score
3.83
Exon sequences
Seq C1 exon
AAAAAAGAGCTGCCCGGCCCCAAGAAGTTTGAGATCTACGCTTTCCATTTTTCAGATTTTGACTGCACTGAACTCCAGCTTGTTATGTGTGGCATCCAGATGTACTATGAAGTTGGAGTGGTTAAAAAGTTCCAGGTCCCTCAGGAG
Seq A exon
GTCCGTTTTCTCATTTATAAAAATAAAGATAAATGATTTTGTGATGAAATTTCATGTTAACTAGCTGTTGTTTTTTTGTAAATAAAG
Seq C2 exon
GTTTTGGTGAGATTCATGTACTCTGTCAGCAAAGGTTACAGGAGAATCACGTATCACAACTGGCGCCATGGCTTCAATGTTGGACAAACCATGTTCACTTTACTCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011671:ENSDART00000135816:12
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:
NO
A:
NA
C2:
PF0023314=PDEase_I=PU(7.2=50.0),PF0771711=OB_NTP_bind=PU(0.1=0.0)
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:
CTGCACTGAACTCCAGCTTGT
R:
GTCCAACATTGAAGCCATGGC
Band lengths:
170-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]