RnoINT0112608 @ rn6
Intron Retention
Gene
ENSRNOG00000010516 | Plau
Description
plasminogen activator, urokinase [Source:RGD Symbol;Acc:3343]
Coordinates
chr15:3647620-3648200:-
Coord C1 exon
chr15:3647978-3648200
Coord A exon
chr15:3647769-3647977
Coord C2 exon
chr15:3647620-3647768
Length
209 bp
Sequences
Splice sites
5' ss Seq
CGTGTACGT
5' ss Score
5.55
3' ss Seq
ATGAGTCTCGTCTCTCACAGGAA
3' ss Score
8.94
Exon sequences
Seq C1 exon
GCAAAAAGCCTTCTTCTACTGTAGACCAACAAGGGTTCCAGTGTGGCCAGAAGGCTCTAAGGCCCCGCTTCAAGATCGTTGGGGGAGAATTCACTGTCGTTGAGAACCAGCCCTGGTTTGCAGCCATCTACCTGAAGAATAAGGGAGGAAGCCCTCCCTCCTTTAAATGTGGTGGGAGCCTCATCAGTCCTTGCTGGGTGGCCAGCGCCACACACTGCTTCGT
Seq A exon
GTACGTTCATCCCTTTGTCTCTTCACTCTGACCCTCCCGGCCCACCCCAAGAACGTCCCTTTCTCCTTCCCTATGGAAGACTGCACTGTCACTCTCCTGCTGAGCTTCTGTCTGTGCAGCTTGTGGTCTTAGGGCTTCGAGGCCTCTGAGGTGGGGTGGAGAAAGTGACGGGACTTTGAGACCAGGCTGATGAGTCTCGTCTCTCACAG
Seq C2 exon
GAATCAGCCAAAGAAGGAAGAGTACGTTGTCTACCTGGGTCAGTCGAAGCGGAACTCCTATAACCCCGGAGAGATGAAGTTTGAGGTGGAGCAGCTCATCTTGCACGAAGACTTCAGCGACGAAACTCTGGCCTTCCATAATGACATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010516:ENSRNOT00000014273:7
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=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(20.2=65.3)
A:
NA
C2:
PF0008921=Trypsin=FE(20.7=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:
TCTAAGGCCCCGCTTCAAGAT
R:
TTCGTCGCTGAAGTCTTCGTG
Band lengths:
292-501
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]