DreINT0111826 @ danRer10
Intron Retention
Gene
ENSDARG00000011671 | pde6b
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:ZFIN;Acc:ZDB-GENE-090421-2]
Coordinates
chr21:20333232-20333491:+
Coord C1 exon
chr21:20333232-20333339
Coord A exon
chr21:20333340-20333427
Coord C2 exon
chr21:20333428-20333491
Length
88 bp
Sequences
Splice sites
5' ss Seq
AATGTATGT
5' ss Score
5.87
3' ss Seq
ATGGTTTTTTATGTTACCAGGGC
3' ss Score
7
Exon sequences
Seq C1 exon
AAAGAGGACGATGTTTCAGAAGATTGTGGATCTCTCTGAAACCTATGAAGAAAGAAAGAAATGGATAGACTTCATGTCACTGGAGACAACAAGGAAAGAAATTGTAAT
Seq A exon
GTATGTGTTTCCTTTAAAATCTACATTAAGCATTTTAAGATGATTAATTTTTGGAAAATATACATTTGATGGTTTTTTATGTTACCAG
Seq C2 exon
GGCCATGATGATGACAGCGTGTGATCTCTCAGCTATCACAAAGCCATGGGAGGTGCAGAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011671:ENSDART00000135816:17
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:
PF0023314=PDEase_I=FE(14.5=100),PF0771711=OB_NTP_bind=FE(23.8=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(8.4=100),PF0771711=OB_NTP_bind=PD(9.3=63.6)
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:
GGACGATGTTTCAGAAGATTGTGG
R:
CTTGCTCTGCACCTCCCATG
Band lengths:
167-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]