DreINT0111829 @ danRer10
Intron Retention
Gene
ENSDARG00000011671 | pde6b
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:ZFIN;Acc:ZDB-GENE-090421-2]
Coordinates
chr21:20322736-20324800:+
Coord C1 exon
chr21:20322736-20322888
Coord A exon
chr21:20322889-20324710
Coord C2 exon
chr21:20324711-20324800
Length
1822 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TATGTTCTTCTTTCTCCAAGCTT
3' ss Score
6.03
Exon sequences
Seq C1 exon
GACAGTCACTTCAGCACATTCGTTGATGAGCTTACTGAATACACCACACACAACCTCCTGGCTGCGCCTATTATGAATGGAAAAGATGTAGTAGCTGTGATCATGGCTGTCAACAAGACCACCGGACCCCATTTCACAGATGAGGATATGGAT
Seq A exon
GTAAGTGTGTATTGGTGTTAAACAGCTTGGAATAATATAATTATACAATTATTATTTTTTGTATTATTATGTTTTATCTATATTATGTATATTATTATGTATATTTTTATGTATATTATGTATGGATGATAATATAGTTATTGTTCTTGGCAGGGTTATTGTTACAATTACAAAAAACTAAAAACAGAACACTAATTTTGTTATTTGAAATCAAATAAATATCCATCGTAAAAGTAGAAAGTTGATTTTATTTGATCTAATTAATTGTCAAGAAATAAATATAATTTTCTTTGCATTAAGTTCATCTATACTTATAAGTATTTATGGATTTATGTTTTTAAAATACATTCAATAAGAATGGTAAATCATACTTGGCATTTAGATGCCGTTTCCTCTAATGCGTTTTGTAAAGTTTTGTTTCGGTGTTCACACTCCGATTGAAAACACACTTTGTTTTGAAAACACAGAATACCCCAATTTAGTGTGGAAAGTTTGTATGAAGACAAACTAAAACATAAGGTTTCAGACATAGTCCCTTCAGTCCACAATCACTCTCTGACTGGACAAGCTCCCTGATTCGTCAACCCCTTCTCATATTAACATTATTAACCGGTATAAGTACAGATGACGGCAAAATATGCACATGCTCAATGTGTGTGAGTGGTCATGTATCATGTGTTTTGCAATGTATAATGTGCAGAGAGATCATTTTTCTGATTATTGTCAATATGGACAAGGATAGTTTTCATTCTTTCTCTCATGACAACTCTCAGAGTTTTAGTATGGTAGTAAATATGTACAGTTGAAGTCAGAATTATTAGCCCCGTGTTTATTTCAACACATTTCTAAACATAATATTTTTAATAACTCATTTCTAATAACTGATTTTTTTTAATCTTTCCCATGATGAGAGTAAATAATATTTTACTAAATATTTTTCAAGACACTTCTATACAGCTTAAAGTGACATTTAATGGCTTAACTAGTTTAATTAGGTTAACTAGGCAGGTTAGGGTAAGTAAACAAGTTATTGTATAACAATGGTTTGTTCTATTGACTATCGAAAAAATATATAGCTTACAGGGGGTAATAATATTGACCTTAAAATGTTAATTTTTAAAAAATGCAAAAAAAATCTTAATAAATAAATATTCCAAAAAATATTTTTTTTATTAAAAAAAATAAAGCTGCTTTTATTTTAGCCAAAATAAAACAATTAAGACTTTCTGCAGAAGAAAAAATATTATTAGACATACTGTAAAAATATCCTTGATCTGTTAAACATAATTTGGGAAATATTTAAAAAAGAAAAAATAATTCAAAGTGGGGCTAATAATTCTGACTTCAACTGTATATGGTAATATTGATGTGTTTGGCCTTTAAGGAGTATTTCTGCTATGCTGCTGCTGCTACTTTGATTATTATGGCAGAGCAAGTACAGAGACTTGCTACTGCAGTGCATATTCACAGACAGTCAAACACACAGCTGCTGCAAACATAATATCCATGTAACCCCCGTAGCAGATCTACACACAGGTGGAGCTAGGGTGGAGGTGGGTCTCGCAGTGCATAATCCAACACTGAGGCATTTAAAAATTTGAGGAGTAAGCTCATTGGCTGCTAACAGCAACCAATCACCTGTGCCATATAGTTGATGTAGGAGCAGATTAGGCATGACCTATCAGCCTGCTCGTGCATGGGGTTTCATGACAGAACTTGAATAAATGTTATTTTAAAGCAAAAACATACGAGTGTAAGCACAGCCTTAGTAAGATCATGCCATTTCCTTGCATTTTTCAAACTATGTTCTTCTTTCTCCAAG
Seq C2 exon
CTTTTTTTAAAGTATCTCAAAGTTGGCTCTCTGAACCTGAAGATTTTTCATCTGAGCTACCTTCACAACTGTGAGACGCGTAAAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011671:ENSDART00000135816:2
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=FE(35.2=100)
A:
NA
C2:
PF0159021=GAF=PD(2.8=13.3)
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:
ACAGTCACTTCAGCACATTCGT
R:
GTCCTTTACGCGTCTCACAGT
Band lengths:
240-2062
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]