RnoINT0133715 @ rn6
Intron Retention
Gene
ENSRNOG00000025892 | Set
Description
SET nuclear proto-oncogene [Source:RGD Symbol;Acc:1307467]
Coordinates
chr3:8650655-8650975:+
Coord C1 exon
chr3:8650655-8650808
Coord A exon
chr3:8650809-8650907
Coord C2 exon
chr3:8650908-8650975
Length
99 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGG
5' ss Score
4.84
3' ss Seq
GAACCCATCTGTCCTCACAGTGT
3' ss Score
7.16
Exon sequences
Seq C1 exon
CATGGTCATGCGCCTCCCTGCTCCATGTGACTGGGCTCAGACATTTCCTTCTTACAGTAACTTCCGGCCCGTGAAGACTCTCCCAGGAGAAGACATGAAACCTCCACCCAAGCCCCCACGCCTCTATCTGCAGGAACCAGCCCCCGGGACTCCT
Seq A exon
GTAAGGGGTTCTGGAGGTCGGGACAGCAGGTGCAGAGGCTGCTAGGAGGGAAAGAGGGTCCGTAACTCTGCGCTGTCCTGAACCCATCTGTCCTCACAG
Seq C2 exon
TGTACCAAGCGCCCCCACATGGACCCTAGAACTGGAGTAGCGCCCCCTCTGGCAGCCTTGTCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025892:ENSRNOT00000050528:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.619 A=NA C2=0.913
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCATGTGACTGGGCTCAGA
R:
AGTTCTAGGGTCCATGTGGGG
Band lengths:
167-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]