BtaINT0079096 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017685 | JUP
Description
Bos taurus junction plakoglobin (JUP), mRNA. [Source:RefSeq mRNA;Acc:NM_001004024]
Coordinates
chr19:42607320-42607803:-
Coord C1 exon
chr19:42607648-42607803
Coord A exon
chr19:42607440-42607647
Coord C2 exon
chr19:42607320-42607439
Length
208 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGT
5' ss Score
11.81
3' ss Seq
CAATGGCTCTTCTCGTGCAGGAT
3' ss Score
7.66
Exon sequences
Seq C1 exon
GCAACCATTGGCCTGATCAGGAATCTGGCCCTGTGCCCAGCCAACCATGCCCCACTGCAGGAGGCAGCGGTCATTCCCCGCCTTGTCCAACTGCTGGTCAAGGCCCACCAGGATGCCCAGCGCCATGTGGCTGCTGGCACACAGCAGCCCTACACG
Seq A exon
GTAAGTGAGCTGCTGGGGCCTGTGACCGCCCGCCCTGAGAGTCTGGCTGCCCTCTGTGCGAACATGTGTGCACATGAGCACGTGACTAGGGAGGCAAGTTGCCATTGAGGCAAACTCTATGGACCAGTGAGGTTTGTCAGTGTCCTGGAAGGGGGTGACCACTCCCTAGGCTCACTGTTGCTATACCCCAATGGCTCTTCTCGTGCAG
Seq C2 exon
GATGGTGTGAGGATGGAGGAGATTGTGGAAGGCTGCACTGGAGCCCTGCACATCCTTGCCCGGGATCCCATGAACCGCATGGAGATCTTCCGACTCAACACCATCCCCCTGTTTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017685:ENSBTAT00000023522:10
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
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:
GCAACCATTGGCCTGATCAG
R:
CTGCACAAACAGGGGGATGG
Band lengths:
276-484
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development