RnoINT0131005 @ rn6
Intron Retention
Gene
ENSRNOG00000013987 | Sbno2
Description
strawberry notch homolog 2 [Source:RGD Symbol;Acc:1307194]
Coordinates
chr7:12512832-12513877:+
Coord C1 exon
chr7:12512832-12512975
Coord A exon
chr7:12512976-12513782
Coord C2 exon
chr7:12513783-12513877
Length
807 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGC
5' ss Score
6.03
3' ss Seq
ACCTCCTACCCTCTCCTCAGACC
3' ss Score
10.52
Exon sequences
Seq C1 exon
ACTGCTCCATCACCAAGTTTCTGAACCGCATCCTTGGGCTGGAGGTGCACAAGCAGAACGCGCTGTTCCAGTATTTCTCCGACACGTTTGACCACCTCATCGAGATCGACAAGAAGGAGGGCAGATACGACATGGGCATTCTGG
Seq A exon
GTAGGCCTCAAGGGCAGGGCTGGGCTCTACACCTTGTGCCCAGGGCCCACTGGAGCCCTGGTGACATCTGAGGCCCACTGTGTCCGTTATGTGAAGTCCATCACTGAGTGGCTACAGATGAGGGCTGGTTGATGTTCTAACAGTGGTCGCCTGGGGAGGCTCTTGCTCAAGACTCACGCTGTGCAGTTACAGAGAACAGTGCTTTGGGAATGTTGTCTCTGTCAGGATGCACTGAGAGGCAGCCTCGGCTGTACGCGGCCTGCAGGCTGTACTCACGCACAGGCTGTTGCCACCCCAGGCTAAGGCTTTAGGCCCTGAAACAGATGGTCATTTGTGAGTGTGGTGGCACTTGCCTGCCAACCCAGCTCTCAGAGGCAGAAAGAGCAGAAGTTCAGGCTCCTCCACTACATGTTGGATTAAAAGCTAGCCTGAGCTACCTGAGATCTTGTCTCAAGGCAAACAAAATAGCAAGGCTCCCTGCCCCTCGTCCAGACATAGTCAGGTTTCACCCTGTGCCTCAACTCACTCCAGCCCCAGCGGACCTGACACTTCCTTCTGCATAATGTGCATGCAGATAGAACTCTCATACAAAAAATAAATAAATCAAAAGCCCGCAATCCCTCTGGTAACCATGCACAGCAGGACACCGGGGGCCCCAGGCCACAGGGTTACCTGACACCCACCCGCAGGACATCTGACCTCCGGGCTTTTGGGTCTTCTGCTCAGTGATGGGTTAGTCACCTCTTATGGGGTACATCAGAGAAGAAGCCCCCTCGGGGTGGCCCTGACCTCCTACCCTCTCCTCAG
Seq C2 exon
ACCTGGCCCCCGGCATCAATGAAATACATGAAGAGAGCCAGCAGGTGTTCCTGGCACCCGGGCACCCACAGGACGGGCAGGTGGTCTTCTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013987:ENSRNOT00000068197:27
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=0.031
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(17.2=100)
A:
NA
C2:
PF138711=Helicase_C_4=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGCTCCATCACCAAGTTTCTG
R:
CTTGTAGAAGACCACCTGCCC
Band lengths:
239-1046
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]