RnoINT0112604 @ rn6
Intron Retention
Gene
ENSRNOG00000010516 | Plau
Description
plasminogen activator, urokinase [Source:RGD Symbol;Acc:3343]
Coordinates
chr15:3649618-3649905:-
Coord C1 exon
chr15:3649875-3649905
Coord A exon
chr15:3649726-3649874
Coord C2 exon
chr15:3649618-3649725
Length
149 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
CCTTTCTTTGCATTTGCTAGCAA
3' ss Score
4.13
Exon sequences
Seq C1 exon
GGTGGCAGTGAACTTGGAGCTTCTGATGAAT
Seq A exon
GTGAGTATCTGCTTCCTTGCACAATAGCTGGCTGCACAGACATCCTGGAGAAACCTTAGAGACCTGTCCCTGCTCAGAGGCTGCCCCCCACCCTGCTCAGAGGCTGGCTCCCCCTTGATCCTTGTTTACCCTTTCTTTGCATTTGCTAG
Seq C2 exon
CAAACTGTGGCTGTCAGAACGGAGGAGTATGTGTGTCCTACAAGTACTTCTCCAGCATTCGAAGATGCAGCTGCCCAAAGAAATTCAAAGGGGAGCACTGTGAGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010516:ENSRNOT00000014273:3
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:
PF066076=Prokineticin=FE(10.9=100)
A:
NA
C2:
PF066076=Prokineticin=FE(39.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCAGTGAACTTGGAGCTT
R:
CTATCTCACAGTGCTCCCCTT
Band lengths:
138-287
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]