DreINT0111614 @ danRer10
Intron Retention
Gene
ENSDARG00000009480 | pdcl
Description
phosducin-like [Source:ZFIN;Acc:ZDB-GENE-030131-2365]
Coordinates
chr16:52097641-52098817:-
Coord C1 exon
chr16:52098636-52098817
Coord A exon
chr16:52097920-52098635
Coord C2 exon
chr16:52097641-52097919
Length
716 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGA
5' ss Score
4.23
3' ss Seq
TAATTCTCCTACATCTCCAGCTA
3' ss Score
5.95
Exon sequences
Seq C1 exon
GGCCGAAGGGAGTGATCAATGACTGGCGCAAATACAAGCAGCTGGAGAACGAGCAGCGCATCGAGCAGCAGAAAGAGATGGAGAAACTGATCAAGAAACTCAGCATGACCTGCAAATCCCATCTGGAGGAAGAAGCCGACAAGCAGAAACAGAAGGAGCTGCAGGATAAACTCACAGGCAAA
Seq A exon
GTGAGAAACAATCTCAAACTCTTACAATATGACTTTTTACTGTGTGTATTAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATTGACAAATGGACAGACGGAAGGACTGATGGATAGATAGATAGATATAATATTTTAATTATTATTGAATTATTTGTTTTTTTATTTTGATAATCAGAAAAATTAAATACTCCCATAAATATATTAGTTTAGTGTAATGCAGTTTGCATTAAAGTAACACAATTTCTGAGGGTTTAGTTTAGTTTAGGATAGTTCATTAAAAACTACAAACCCTCTCATTTACTCAAGCTCCACAAACCTGTTTTCTTTTTTCTTTTTTTTGTTGAACTCAAAATCAGTTATTTTGAAAAATTCTAAAAACCTGTAACCATTGACTTGCATGTTGTTAGTTTGTCGTACTATGGAAGTCAATGGTTACAGGTTTCTAACATTTTTTTTAAATATCGTCTTTTGTGTTTAACAGGAAAAAGATCTCATAAAGTTACGGAACAATTAAAGTAAATAATAAATCATTTGAGTTTTTTGGGTGAACTATCCCTTTAACCCTGAATATTTCCTCACATATAAAATCCAAAAAATGTAATTCTCCTACATCTCCAG
Seq C2 exon
CTAAACCTGCGCGTGGATGAGGAAGAGGAGGAGGATGACGATGATGAAGCGTTCCTCCAGCAGTATCGTCTGCAGCGGATGGAGCAGATGCGGCGGCAGCTGTGTGGAGGCAGGCGATTTGAGAAGGTGATGGACATCTCTTCGGGAGAGGAGTTTCTGCGTGCCGTCGACGAGGAGGGAAAGAGCACGCTGGTGCTGGTCCACATCTATGAGCCTGAGGTGCCCGCCTGCCAGGCCATGGACGGCAGCCTGCTCTGTCTGGCGCTGCAGTACCCGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009480:ENSDART00000153959:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.508 A=NA C2=0.183
Domain overlap (PFAM):
C1:
PF0211411=Phosducin=FE(20.5=100),PF096605=DUF2397=FE(45.1=100)
A:
NA
C2:
PF0211411=Phosducin=FE(31.5=100),PF096605=DUF2397=PD(23.3=33.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATCGAGCAGCAGAAAGAGA
R:
GGCACCTCAGGCTCATAGATG
Band lengths:
349-1065
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]