DreINT0111837 @ danRer10
Intron Retention
Gene
ENSDARG00000011671 | pde6b
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:ZFIN;Acc:ZDB-GENE-090421-2]
Coordinates
chr21:20326615-20326876:+
Coord C1 exon
chr21:20326615-20326662
Coord A exon
chr21:20326663-20326726
Coord C2 exon
chr21:20326727-20326876
Length
64 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTG
5' ss Score
8.35
3' ss Seq
AACACTTTGTGCTTGTGTAGACA
3' ss Score
6.29
Exon sequences
Seq C1 exon
ATTTGCAACATCATGAATGCAGCATCAGAAGAAATGTTCAAGTTTCAG
Seq A exon
GTATTGATTTTTGCTATTTTGCTATTTCATGACTCGAGAGTAGTAACACTTTGTGCTTGTGTAG
Seq C2 exon
ACAGAGGCTCTGGATGATAGTGGATGGACCATCAAGAATGTGCTCTCCTTGCCAATTGTCAACAAAAAAGAAGAAATTGTTGGCGTTGCAACTTTCTACAACAGGAAGGATGGCAAACCATTTGATGAACATGATGAGCAACTTATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011671:ENSDART00000135816:8
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=0.020
Domain overlap (PFAM):
C1:
PF0159021=GAF=FE(8.5=100)
A:
NA
C2:
PF0159021=GAF=FE(27.7=100)
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:
TGCAACATCATGAATGCAGCA
R:
AGAAAGTTGCAACGCCAACAA
Band lengths:
142-206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]