DreINT0111825 @ danRer10
Intron Retention
Gene
ENSDARG00000011671 | pde6b
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:ZFIN;Acc:ZDB-GENE-090421-2]
Coordinates
chr21:20332730-20333339:+
Coord C1 exon
chr21:20332730-20332830
Coord A exon
chr21:20332831-20333231
Coord C2 exon
chr21:20333232-20333339
Length
401 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
CTTTTTCTCTGCCTAAAAAGAAA
3' ss Score
4.88
Exon sequences
Seq C1 exon
TCGTTGAACATTTTCCAGAACCTCAACAGAAGACAAACAGAACATGTCTTCCACCTCATTGATATTGCCATTATTGCAACTGACCTTGCCTTGTACTTCAA
Seq A exon
GTAAGTTCTAACAATATGTAACAATTAATTGTTTTAAGTTTTTAATGCACTGCCTGGCAGGGGTGTCGCCAACAATTTTGGACCCTATGCCCAAATATTTGAAGTGGGCCTGTAAGTGAAAAGCAGGATTGGTGGGGTATTTGGTCGCAAGGAAAATTGTCCATCTAGTCATCCTCTGCCCGTTGCTGGGCCCCTAAATTGCAAGGGCACTCTGTTCCCATTTCCCCCCGCTAGTGACGCCCTTGCTGCCTGCACAAATATCTATAAAGATATCTATAAATACAATATCTATAAAGAGTCTCTGATTGGATCTTCATTTGGAGTGGATAATGTTTTTGGCAACATGCAGCAATTGTGTAGCTTTTTATGTACTCAGCCCAACTTTTTCTCTGCCTAAAAAG
Seq C2 exon
AAAGAGGACGATGTTTCAGAAGATTGTGGATCTCTCTGAAACCTATGAAGAAAGAAAGAAATGGATAGACTTCATGTCACTGGAGACAACAAGGAAAGAAATTGTAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011671:ENSDART00000135816:16
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(13.3=100),PF0771711=OB_NTP_bind=FE(21.9=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(14.5=100),PF0771711=OB_NTP_bind=FE(23.8=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:
TCGTTGAACATTTTCCAGAACCTCA
R:
ACAATTTCTTTCCTTGTTGTCTCCA
Band lengths:
206-607
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]