RnoINT0130992 @ rn6
Intron Retention
Gene
ENSRNOG00000013987 | Sbno2
Description
strawberry notch homolog 2 [Source:RGD Symbol;Acc:1307194]
Coordinates
chr7:12507549-12508942:+
Coord C1 exon
chr7:12507549-12507702
Coord A exon
chr7:12507703-12508765
Coord C2 exon
chr7:12508766-12508942
Length
1063 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CACGGGCCTTGCTTTTGCAGTGG
3' ss Score
8.69
Exon sequences
Seq C1 exon
GGGCGTGGGTGCCATGGAGATTGTGGCCATGGACATGAAGGTCAGTGGCATGTACATCGCCCGCCAGCTCAGCTTCTCAGGGGTCACATTCCGAATCGAGGAGATCCCACTGTCTCCTGTCTTCGAGCAGGTCTATAATCGGGCAGCCCGGCTG
Seq A exon
GTAAGATTGTCTGCAGGGACCCCTGTTTCTTGTAGGCCTGTGACACAGCATCACACTGTGGGATCTGTGGGAGGGAGCAGAAGCTTCCCAGGGTGTGCCAGAGCCACTCAGCATTAGTTTATCTGGAGCAAGTCTTTACAGATTTACTTAGTTATTATATATGAGCACACTGTAGCTGTCCTCAGACGCACCGGAAGAGGGCATCATATCCATTACAGATGGGTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCCCTAGAAGAGCAATCCATGCTCTTAACTGAAGTTCAGCTGCCCTGTAGAGACTCTGAAACTAGGGGTGGGGACTCGTGCCTGTCATTCCAGCACTTGGGAGGTAGAGGCAGGATGATCAGAAATTGAAGGTTATCCGGCTAGAGAGATGGCTCAGTGGTTAAGACCACTGACTATTCTAGGAGTCCTGAGTTCAAATCCCAGCAACCACATAGTGGCTCACAACCATCTGTAATGGGATTTGATGCCCTCTTCTGGTGTGTCTGAAGACAGCTACAGTGTACTCATAAATAAAATAAATCTGGGGTTGGGGATTTGGCTCAGTGGTAGAGCGCTTGACTAGGAAGCGCAAGGTCCTGGGTTCGGTCCCCAGCCCCGGAAAAAAAAAAAAAAAAAGAATAAAATAAATCTTTAAAAATAAAAAGAAATTGAAGGTTATCATAGACTTTATATCCAGCTCAAAGCCAGCCCTCTCCCCCAGTAAGTTAGACATAGAGTGCACATCTGTTGTCGCGTGTCCTGGAGCCTGGAAGTCTAAAGCAAGGGGATCAGGAATTCAAGGCCAGCCTGGGCTACCTGAGATTCTTAATCAAATAACAGTGATGGCCCTTGCCCAGCCCATACTTTTTCCCCTATGAGCAGTTCTTTGACAGCCGTGGGTGTGGATGGAGCATGTTCTTGCTCACACTCACCCTGTCCGTCCTCAACTGTGCTCCCGTCTTCACTGGTGCTCCCCCACATGCTGCCCTAGTCCCTGCCAGAGACTGCCCGCCATCCTCAGCACGGGCCTTGCTTTTGCAG
Seq C2 exon
TGGGCCGAGGCCCTGAGTGTGTTCCAGCAGGCGGCTGACTGGATCGGTCTGGAGTCTCGGAAGTCCCTGTGGGGTCAGTTCTGGTCCGCACACCAGCGCTTCTTTAAATACCTGTGCATTGCGGCCAAGGTGCACCGGCTGGTGGAGCTGGCACAGCAGGAGCTGAGCAGGGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013987:ENSRNOT00000068197:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138721=AAA_34=PD(16.3=92.3)
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:
GTGGGTGCCATGGAGATTGTG
R:
CTTGTCCCTGCTCAGCTCCT
Band lengths:
327-1390
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]