RnoINT0144176 @ rn6
Intron Retention
Gene
ENSRNOG00000013934 | St5
Description
suppression of tumorigenicity 5 [Source:RGD Symbol;Acc:1308995]
Coordinates
chr1:174138363-174138892:-
Coord C1 exon
chr1:174138653-174138892
Coord A exon
chr1:174138450-174138652
Coord C2 exon
chr1:174138363-174138449
Length
203 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
ACTTGCTGCTCCTCTCTCAGGCC
3' ss Score
9.12
Exon sequences
Seq C1 exon
AATGTAATACCCTCAATGGACTTGTGTCAGAGGTGTTTATCCGGTTCTTTGTGGAGACCGTGGGGCACTACTCCCTCTTCCTGACACACAGTGAGAAGGGAGAAAGGGCTTTTCAGCGCGAGGCCTTCCGAAAGTCTGTGGCCTCCAAAAGCATCCGCCGTTTCCTTGAGGTTTTTATGGAGTCTCAGATGTTTGCTGGCTTCATCCAAGACAGGGAGCTAAGAAAGTGTCGAGCAAAGG
Seq A exon
GTAAGGTTCCAGGAACTGGGATGAGAGCTGGGGGCGTCTTTAGACTCAATATAACTAGGTCATTGTAATGAACCAGTCAGAGTTCTGACCCTGTGGTCCTACCAACTGTTAGACCAGATGGCTGCCTTTTCCCTTTTGCCTCTGCACTGTGTGACCATCATGTACTCATACTGCCGTCTTCATACTTGCTGCTCCTCTCTCAG
Seq C2 exon
GCCTCTTTGAGCAGCGAGTAGAGCAGTATCTAGAAGAGCTCCCTGACACTGAGCAGAGTGGGATGAACAAGTTTCTCCGTGGCTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013934:ENSRNOT00000064902:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.033
Domain overlap (PFAM):
C1:
PF0345514=dDENN=WD(100=84.0)
A:
NA
C2:
NO
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:
ACCCTCAATGGACTTGTGTCA
R:
ATCCCACTCTGCTCAGTGTCA
Band lengths:
296-499
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]