RnoINT0130995 @ rn6
Intron Retention
Gene
ENSRNOG00000013987 | Sbno2
Description
strawberry notch homolog 2 [Source:RGD Symbol;Acc:1307194]
Coordinates
chr7:12509538-12510704:+
Coord C1 exon
chr7:12509538-12509617
Coord A exon
chr7:12509618-12510512
Coord C2 exon
chr7:12510513-12510704
Length
895 bp
Sequences
Splice sites
5' ss Seq
AACGTAAAT
5' ss Score
0.44
3' ss Seq
CCCATGGCTCCTTCCTGCAGGGC
3' ss Score
10.48
Exon sequences
Seq C1 exon
AGGCGTCTTCCTGTCCCTGATCCAGAAGCACTTCCCTTCCACCAGGAGGAGGCGTGACCGGGGAGGAGGAAAGAGGAAAC
Seq A exon
GTAAATGCCCGCCCATCTCCTCCTCTGCTTCCCTCTCTACTCTCTACCCTGCCCTCCCTGCGGACCTGCCACTCTAGTGTCCTGCACTCTAGTGTCCCAGCTGGGAGTTTCCACAAGTACCCCAGGCAGTGCATGTGTGTAGAGCTGACCATTTCCCTGCAGGCTGCTCAGAGAAGCAAAGATCTGGGCAAAACCGTGGCCGACTCTAACCTCAGGCTACCCAGCCTGTCCATCCAGCCCCACTAGCCAAGGCCCTGGGAACCCCAGCTCCAGCCCCCACTGGTTGGCAGGCAGGCAGGCAGGCAGGCCTCTGCACTGCTCAGCTGTGCACATGCTGACCACAAGGACCGCCAGTGCCTGGAGCACTCGGGTCAGCGCCAGGGTCTCCTACCTTCCTTCCGGTTCACAGACCTCCCGAGCCAGGCTCAGAGAAGCCAGGTTCCTCACCCGCAGGCACACTGGTGGTGAAGGGCAGTGCAGCCTCCTCCTCTCCAGATGCCCCAAGACACTCACAGGCCCCACACCCTCCACACATCATTCTGTCTGACAAGACAGCACTGTCACATGAAGTGGCGGGACTTGTCCTTGGAGGAGGCTCTGATGTCTTCTGAGCCTCTCACCTACCACTAGGTCCAAACATGAAGCCATCATGGCTGGAGATGGGGACATGGTACCCCACGTTGCCTCTCCCTGCCAGAGAGGGGCTGAAGGGCTTCGTGGAAGGGATTCAAGACACATGCAACAGAGGAAGCCAGCCAGCCTTAGACCGGTGCCATACCAGAGTCAAGCCAGCTCCTAGCTTCAGCCCCTCTTGCTCTCTCTACCCTGCCACCCCAGCTTCACCCACTTCTGCAGCCTCCACTTCAGAAAGCTGACCCATGGCTCCTTCCTGCAG
Seq C2 exon
GGCGGCCTCGGGGTCGTGGTCCCAAGGCTTCCAGACTGACACTGGAGGCAGCAGGAGTTATCCGTATTAGTGATGGCAGCAGCACAGAGTCAGATGCTGGCCTGGATAGCGACTTCAATTCATCCCCAGAGTCCCTGGTAGATGATGATGTGGTCATCGTAGACGCCCCCACGCTCCCCACAGATGACCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013987:ENSRNOT00000068197:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.464 A=NA C2=0.523
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGTCTTCCTGTCCCTGATCC
R:
CTCGGTCATCTGTGGGGAGC
Band lengths:
270-1165
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]