DreINT0111827 @ danRer10
Intron Retention
Gene
ENSDARG00000011671 | pde6b
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:ZFIN;Acc:ZDB-GENE-090421-2]
Coordinates
chr21:20333428-20333643:+
Coord C1 exon
chr21:20333428-20333491
Coord A exon
chr21:20333492-20333568
Coord C2 exon
chr21:20333569-20333643
Length
77 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TGTCAATTCATCCATCCTAGGTT
3' ss Score
7.71
Exon sequences
Seq C1 exon
GGCCATGATGATGACAGCGTGTGATCTCTCAGCTATCACAAAGCCATGGGAGGTGCAGAGCAAG
Seq A exon
GTAAAAGAAGTAAACTGGGGAAGAGACAATGCTTCTGCTTCTTTGTAATAAACAAAGTGTCAATTCATCCATCCTAG
Seq C2 exon
GTTGCCCTCTCTGTAGCAGCTGAATTCTGGGAGCAGGGTGACCTTGAGAGGACCGTTCTTGAGCAACAGCCTATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011671:ENSDART00000135816:18
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=0.080
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(8.4=100),PF0771711=OB_NTP_bind=PD(9.3=63.6)
A:
NA
C2:
PF0023314=PDEase_I=FE(9.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCATGATGATGACAGCGTGT
R:
TAGGCTGTTGCTCAAGAACGG
Band lengths:
136-213
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]