DreINT0111833 @ danRer10
Intron Retention
Gene
ENSDARG00000011671 | pde6b
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:ZFIN;Acc:ZDB-GENE-090421-2]
Coordinates
chr21:20324882-20325212:+
Coord C1 exon
chr21:20324882-20325022
Coord A exon
chr21:20325023-20325137
Coord C2 exon
chr21:20325138-20325212
Length
115 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
GTGGTTGTGTTCGCTTGCAGGAG
3' ss Score
9.66
Exon sequences
Seq C1 exon
CTGCTGTTGTGGTCGGCTAACAAGGTGTTTGAAGAGCTCACAGATATTGAACGACAGTTTCACAAAGCTTTGTACACAGTGCGAGCTTACCTCAACTGTGACAGGTACTCTGTGGGCCTGCTGGACATGACCAAGGAAAAG
Seq A exon
GTACGTCAATCACTATAATTGCCTAGAGGAAGCCAGACTTCATGCTTAATTTAGTGGCTTCAGTCTGTCCTGTCTCTCTCCTAAAGACTGACCCAGTGGTTGTGTTCGCTTGCAG
Seq C2 exon
GAGTTCTTTGATATTTGGCCCGTGCTGATGGGGGAGCAGCCACCTTACTCTGGCCCTGTAACTCCAGACGGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011671:ENSDART00000135816:4
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=PU(18.1=68.1)
A:
NA
C2:
PF0159021=GAF=FE(13.6=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:
CTGCTGTTGTGGTCGGCTAAC
R:
GTCTGGAGTTACAGGGCCAGA
Band lengths:
210-325
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]