DreINT0111830 @ danRer10
Intron Retention
Gene
ENSDARG00000011671 | pde6b
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:ZFIN;Acc:ZDB-GENE-090421-2]
Coordinates
chr21:20334116-20334445:+
Coord C1 exon
chr21:20334116-20334199
Coord A exon
chr21:20334200-20334291
Coord C2 exon
chr21:20334292-20334445
Length
92 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAT
5' ss Score
7.87
3' ss Seq
CCTCTCCTTGTGTATCACAGGAG
3' ss Score
8.48
Exon sequences
Seq C1 exon
CCCATGATGGACAGAAACAAAGCTGCAGAGCTGCCGAAGCTTCAGTGTGGTTTTATTGACTTCGTCTGTACTTTCGTCTATAAG
Seq A exon
GTACATCTTTATGATCACTTTTTGTACATTTTTTAGTTGATGTTTTGGCCAATAAGATTAGTTAGCAACCATCCTCTCCTTGTGTATCACAG
Seq C2 exon
GAGTTCTCCCGTTTCCATCCTGAAATCAAGCCAATGTTTGATGGTATTCTAAACAATCGGATGCATTGGAAAGAGAGGCAGGAGGAATATGAGGCAAAACTAAAGGCAATGGAAGAGGCAGTCAAAGCCAGACAGGAAGCAGCTGCCAAAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011671:ENSDART00000135816:20
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=0.154
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(10.8=100)
A:
NA
C2:
PF0023314=PDEase_I=PD(7.6=36.5),PF141951=DUF4316=PU(85.7=80.8)
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:
GCCGAAGCTTCAGTGTGGTTT
R:
TTGACTGCCTCTTCCATTGCC
Band lengths:
177-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]