GgaINT1015798 @ galGal4
Intron Retention
Gene
ENSGALG00000017414 | JUP
Description
junction plakoglobin [Source:RefSeq peptide;Acc:NP_001254482]
Coordinates
chr27:4659988-4660375:-
Coord C1 exon
chr27:4660220-4660375
Coord A exon
chr27:4660108-4660219
Coord C2 exon
chr27:4659988-4660107
Length
112 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
GAGCACACATCCCATCACAGGAT
3' ss Score
3.14
Exon sequences
Seq C1 exon
GCCACCATTGGGCTGATCCGCAACCTGGCCCTGTGCCCGGCCAACCATGGCCCGCTGCAGGAGGCGGCCGTCATCCCACGCCTGGTGCAGCTGCTGGTGAAGGCTCACCAGGATGCGCAGCGTCACGTGGCAGCCGGCACACAGCAGCCCTACACG
Seq A exon
GTGAGTCCCGGCACAGCCCGGTGTCCTCAGGCTGGCGGGGTGTCTGTCCCCATACTCAGTGTGTGGTGGGACCACGGCACGGGGCCCCATCTGAGCACACATCCCATCACAG
Seq C2 exon
GATGGCGTCAAGATGGAGGAGATCGTGGAGGGCTGCACGGGAGCGCTGCACATCCTGGCCCGGGACCTCATGAACCGCATGGAGATCTTCCGGCTCAACACCATTCCCCTCTTCGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017414:ENSGALT00000028102:8
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(41.0=40.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATTGGGCTGATCCGCAACC
R:
CGGAAGATCTCCATGCGGTTC
Band lengths:
243-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]