RnoINT0108934 @ rn6
Intron Retention
Gene
ENSRNOG00000000065 | Pde6b
Description
phosphodiesterase 6B [Source:RGD Symbol;Acc:1311039]
Coordinates
chr14:2337006-2337580:-
Coord C1 exon
chr14:2337431-2337580
Coord A exon
chr14:2337150-2337430
Coord C2 exon
chr14:2337006-2337149
Length
281 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGAT
5' ss Score
6.04
3' ss Seq
ACGCTGCTGTCTACCTCCAGTCT
3' ss Score
8.25
Exon sequences
Seq C1 exon
GAAGGGCCCCTGGATGAGTCAGGGTGGGTGATCAAGAATGTTCTCTCCATGCCCATTGTCAACAAGAAGGAGGAGATTGTGGGGGTAGCCACCTTCTACAACAGGAAAGATGGAAAGCCCTTCGATGATCAAGATGAAGTCCTTATGGAG
Seq A exon
GTAGATATCTAGTATCATATGTAGACAGAGGGGTCTGTCAATCATGTCGTGGGACATCAGCGAAGATTATCCCTCTCCACACACATCTGGACCCTGCTTAGCACTACATCACAGAGAAGGGGACAAGAACAGTTCCCAAAGTTCTATCTCGGGAGGCCCTATTCAGAGGCATCCATTGTTCTGTAGCAGTCTGGGAAACTGGCCTGAGTCACAGACATAAAACGTAGTTAGCACTCGCCGAAGTGCATAGCTAATGGGGTGACGCTGCTGTCTACCTCCAG
Seq C2 exon
TCTCTGACACAGTTCCTGGGATGGTCAGTGTTGAACACAGACACCTATGACAAGATGAACAAGCTGGAGAACCGTAAGGACATCGCCCAGGACATGGTTCTGTACCATGTGAGATGCGACAAGGATGAAATCCAGGAAATCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000065:ENSRNOT00000000077:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0159021=GAF=FE(27.5=100)
A:
NA
C2:
PF0159021=GAF=PD(5.1=18.8)
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:
GAAGGGCCCCTGGATGAGTC
R:
ATCCTTGTCGCATCTCACATGG
Band lengths:
276-557
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]