DreINT0111824 @ danRer10
Intron Retention
Gene
ENSDARG00000011671 | pde6b
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:ZFIN;Acc:ZDB-GENE-090421-2]
Coordinates
chr21:20332566-20332830:+
Coord C1 exon
chr21:20332566-20332653
Coord A exon
chr21:20332654-20332729
Coord C2 exon
chr21:20332730-20332830
Length
76 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
TTTGCTTTATTTTCTGTTAGTCG
3' ss Score
4.94
Exon sequences
Seq C1 exon
ATCCCAAAATCCTCTAGCCAAGCTGCATGGATCCTCCATTCTAGAAAGGCATCACTTGGAATTTGGCAAATTCCTGTTAGGCGAAGAG
Seq A exon
GTATGAGCCAGATGCCCAATAAAATAAGCAGCTGCTTATTAGATTTGATACTAACATTTGCTTTATTTTCTGTTAG
Seq C2 exon
TCGTTGAACATTTTCCAGAACCTCAACAGAAGACAAACAGAACATGTCTTCCACCTCATTGATATTGCCATTATTGCAACTGACCTTGCCTTGTACTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011671:ENSDART00000135816:15
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(11.6=100),PF0771711=OB_NTP_bind=FE(19.2=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(13.3=100),PF0771711=OB_NTP_bind=FE(21.9=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:
CTAGCCAAGCTGCATGGATCC
R:
TGAAGTACAAGGCAAGGTCAGT
Band lengths:
175-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]