DreINT0111819 @ danRer10
Intron Retention
Gene
ENSDARG00000011671 | pde6b
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:ZFIN;Acc:ZDB-GENE-090421-2]
Coordinates
chr21:20330171-20330472:+
Coord C1 exon
chr21:20330171-20330314
Coord A exon
chr21:20330315-20330406
Coord C2 exon
chr21:20330407-20330472
Length
92 bp
Sequences
Splice sites
5' ss Seq
CTCGTATGT
5' ss Score
5.29
3' ss Seq
GTTTGTTATTACCTTTGTAGAAA
3' ss Score
7.29
Exon sequences
Seq C1 exon
GCTTTGACACAGTTTTTAGGCTGGTCGGCTCTCAACACAGACACCTACGACAAAATGAATAAACTGGAGAACAGGAAAGATATTGCCCAGGACATGGTGCTGTACCATGTCAAATGTCGAGATGATGAGATCCAAGATATCCTC
Seq A exon
GTATGTTCCAAGCGACTTATTTTGTCTCATTTGATTTTGAACTTGTATTTTACTTGTACTGATTATAGTTTTGTTTGTTATTACCTTTGTAG
Seq C2 exon
AAAACAAGAGAATATTTTGACAGGGAGCCAAGGGACTGCGAGGAGGAGGAGCTTTTGGAGATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011671:ENSDART00000135816:10
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=PD(4.5=16.7)
A:
NA
C2:
NO
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:
ACAGTTTTTAGGCTGGTCGGC
R:
CCCTTGGCTCCCTGTCAAAAT
Band lengths:
170-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]