RnoINT0108912 @ rn6
Intron Retention
Gene
ENSRNOG00000017816 | Pde6a
Description
phosphodiesterase 6A [Source:RGD Symbol;Acc:1306835]
Coordinates
chr18:56580548-56581084:+
Coord C1 exon
chr18:56580548-56580595
Coord A exon
chr18:56580596-56580934
Coord C2 exon
chr18:56580935-56581084
Length
339 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
GCCCTGCCATTCTCTTACAGAAA
3' ss Score
10.94
Exon sequences
Seq C1 exon
ATCTGCAATATAATGAATGCGCCTGCAGAGGACTTTTTTGAATTCCAG
Seq A exon
GTAAGCCATTTTTATTTGATCCCTTAACCACAGAACTTTCTCCTGTCTCTCTCCAGGAAGAGCATAGGAATATACTAGGATTTGCCTGTTTTCTTGGGACGCAGTCTGGATAGTGGAAATTTGGACAAAGTTACATTATAATGGAAGGGGGAGACTGTAGTAACTGGGTAAATTCCAAGGACACTTTCAACTTCAAAACACTTGCATCCCTCACTTTCTGACTCCAGGAACATTGTTTAGGCTACTCCCTATCTGAGTCAGGCCATAACCCCAGTCCTGTCACGGCTATCTGCGCAGCATGGAAGGGTTGGAGCCCTCAGCCCTGCCATTCTCTTACAG
Seq C2 exon
AAAGAGCCTCTGGATGAATCTGGATGGATGATTAAAAACGTACTCTCCATGCCGATTGTCAACAAGAAGGAAGAGATCGTGGGCGTGGCCACATTTTACAATCGCAAAGATGGGAAGCCCTTCGACGACATGGACGAGACCCTTATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017816:ENSRNOT00000024171:8
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=0.020
Domain overlap (PFAM):
C1:
PF0159021=GAF=FE(8.4=100)
A:
NA
C2:
PF0159021=GAF=FE(27.5=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:
ATCTGCAATATAATGAATGCGCCTG
R:
CTCCATAAGGGTCTCGTCCATG
Band lengths:
198-537
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]