RnoINT0131000 @ rn6
Intron Retention
Gene
ENSRNOG00000013987 | Sbno2
Description
strawberry notch homolog 2 [Source:RGD Symbol;Acc:1307194]
Coordinates
chr7:12511846-12512173:+
Coord C1 exon
chr7:12511846-12511981
Coord A exon
chr7:12511982-12512060
Coord C2 exon
chr7:12512061-12512173
Length
79 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
TAGAGCCTTTCTGCCCTCAGGCC
3' ss Score
7.86
Exon sequences
Seq C1 exon
CTCGTGGCTATTATCTCTGAGGCCTCCAGCTCTGGTGTCTCCCTCCAAGCCGACCGGCGAGTCCAGAACCAGAGACGCCGGGTACACATGACCTTGGAGCTGCCTTGGAGCGCAGACCGAGCCATCCAACAGTTTG
Seq A exon
GTGAGGCCCCCAGCCCTAGCCCAATTATCCCTTCCCTGTAACCCCCTATCTCAGTCTCTTAGAGCCTTTCTGCCCTCAG
Seq C2 exon
GCCGCACCCACAGATCCAACCAGGTCTCAGCGCCCGAGTATGTCTTCCTTATCTCCGAGCTGGCAGGGGAGCGCAGGTTCGCCTCCATTGTGGCCAAGCGGCTGGAGAGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013987:ENSRNOT00000068197:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.079
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(16.1=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(13.3=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:
CTCTGGTGTCTCCCTCCAAGC
R:
TGCCAGCTCGGAGATAAGGAA
Band lengths:
172-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]