RnoINT0130996 @ rn6
Intron Retention
Gene
ENSRNOG00000013987 | Sbno2
Description
strawberry notch homolog 2 [Source:RGD Symbol;Acc:1307194]
Coordinates
chr7:12510513-12511107:+
Coord C1 exon
chr7:12510513-12510704
Coord A exon
chr7:12510705-12510937
Coord C2 exon
chr7:12510938-12511107
Length
233 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
GACCCTCTGCCCACCCCCAGGTC
3' ss Score
10.3
Exon sequences
Seq C1 exon
GGCGGCCTCGGGGTCGTGGTCCCAAGGCTTCCAGACTGACACTGGAGGCAGCAGGAGTTATCCGTATTAGTGATGGCAGCAGCACAGAGTCAGATGCTGGCCTGGATAGCGACTTCAATTCATCCCCAGAGTCCCTGGTAGATGATGATGTGGTCATCGTAGACGCCCCCACGCTCCCCACAGATGACCGAG
Seq A exon
GTGAGTGTCCATCATCCAACCAGACTTAGTCAGCAGCAGACATTACCACATGAGGACCTTTCTACCACATACCCTGTTACAGATGGGGAGGCCGAGGCTCACAGCCCTGCTCAGGGCTGAGCTATCACACACAGCTGAGTGACTGCTATACCCATGGGCCTCCATTCCCCTGCTGGGAGGCTCCTTACGCTGCTCCTGCAAGGCCACCTCACTGACCCTCTGCCCACCCCCAG
Seq C2 exon
GTCCCCTGTACCCACTTCAGAGAGACCTACAGGGCCCTGGTGTCCTGGAGCGGGTGGAACGGCTGAAACAGGGCCTGCTGGCAAAGGTGCGAGCACTGGGCCGGGAGCTGCCTGTGAACACATTGGACCAGCTCATCCACCAGCTTGGGGGCCCGGAGTGTGTGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013987:ENSRNOT00000068197:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.523 A=NA C2=0.193
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138711=Helicase_C_4=PU(6.1=29.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGGAGGCAGCAGGAGTTAT
R:
GGTGGATGAGCTGGTCCAATG
Band lengths:
293-526
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]