RnoINT0131002 @ rn6
Intron Retention
Gene
ENSRNOG00000013987 | Sbno2
Description
strawberry notch homolog 2 [Source:RGD Symbol;Acc:1307194]
Coordinates
chr7:12512255-12512517:+
Coord C1 exon
chr7:12512255-12512326
Coord A exon
chr7:12512327-12512408
Coord C2 exon
chr7:12512409-12512517
Length
82 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTCTCTCATCTGCCCCACAGTAT
3' ss Score
8.04
Exon sequences
Seq C1 exon
GGTGCTCTGACCCACGGAGATCGACGGGCCACTGAGTCCCGGGACCTGAGCAAGTATAACTTCGAGAACAAG
Seq A exon
GTAAGTCAAGGGGAGTGGGGAGGCTGCCATGTGAGGGAAGGCCACCCTCTACCTGGGCCTCATTCTCTCATCTGCCCCACAG
Seq C2 exon
TATGGCGCCCGTGCGCTCAGCCGTGTCCTTGCCACAATCATGGGCCAGACAAACAACAGGGTGCCCCTGCCCCAGGGCTATCCAGGAGGGGATGCTGCCTTTTTTCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013987:ENSRNOT00000068197:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.108
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(8.2=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(12.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGACCCACGGAGATCGAC
R:
AAAAAGGCAGCATCCCCTCCT
Band lengths:
171-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]