RnoINT0077318 @ rn6
Intron Retention
Gene
ENSRNOG00000015380 | Jup
Description
junction plakoglobin [Source:RGD Symbol;Acc:620412]
Coordinates
chr10:88286787-88287245:-
Coord C1 exon
chr10:88287090-88287245
Coord A exon
chr10:88286907-88287089
Coord C2 exon
chr10:88286787-88286906
Length
183 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
TCATGGCTCTTCTCATGCAGGAT
3' ss Score
8.58
Exon sequences
Seq C1 exon
GCAACTATCGGCCTGATCCGGAACCTGGCTCTGTGCCCCGCCAATCATGCCCCGCTGCAGGAGGCCGCGGTCATTCCCCGCCTCGTTCAGCTGCTGGTCAAGGCCCACCAGGATGCCCAGCGACATGTAGCTGCGGGCACCCAGCAGCCCTACACG
Seq A exon
GTAAGAGAGCTTAGTGGTGTCAGGGATGGACTCCTTGGGGTGTGTCCTCAGGGTTTATGTGTCTAGAAGAAGAGGCGAGTTGACACTAATGTCAACTCTAGGGCCTGATGAATGGTGTCAGGGTGTGCTTTGTCCAGGGGCCACCTGTCCCCCTCCTCTTGTTTCATGGCTCTTCTCATGCAG
Seq C2 exon
GATGGTGTGAGGATGGAGGAGATCGTGGAGGGCTGCACCGGAGCCCTGCACATCCTCGCCCGAGATCCCATGAACCGCATGGAGATCTTCCGGCTCAACACCATTCCCCTGTTTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015380:ENSRNOT00000040845:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0051418=Arm=PU(43.9=45.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGATCCGGAACCTGGCTCT
R:
TGTTGAGCCGGAAGATCTCCA
Band lengths:
244-427
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]