RnoINT0130999 @ rn6
Intron Retention
Gene
ENSRNOG00000013987 | Sbno2
Description
strawberry notch homolog 2 [Source:RGD Symbol;Acc:1307194]
Coordinates
chr7:12511519-12511981:+
Coord C1 exon
chr7:12511519-12511650
Coord A exon
chr7:12511651-12511845
Coord C2 exon
chr7:12511846-12511981
Length
195 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
CTCTCACCCCCAACCTCCAGCTC
3' ss Score
7.3
Exon sequences
Seq C1 exon
ATGACTGGCAGGAAAGGCCGAGTGGTATCGAGGCCCGACGGGTCAGTGGTCTTTGAGTCCAGAGCAGAGCAGGGCCTGTCCATCGACCATGTGAACCTCAGGGAGAAGCAGCGTTTCATGAGCGGCGAGAAG
Seq A exon
GTGGGGCCAGCGTGGACAGCTAGGGACAGCTAGGGGTGGGGGCTGTTCCCAGTGCATGGAGTGTATGAGTGCAAGGTGGGGAGGGGGTGTGGCTGCACTCCTGGAGGTGTACACCTTTCTCCCTGGGTACCCAGAGTTGGGCAGTGAAGAGGGCAACCCCCAAGCACCCTGACCCCTCTCACCCCCAACCTCCAG
Seq C2 exon
CTCGTGGCTATTATCTCTGAGGCCTCCAGCTCTGGTGTCTCCCTCCAAGCCGACCGGCGAGTCCAGAACCAGAGACGCCGGGTACACATGACCTTGGAGCTGCCTTGGAGCGCAGACCGAGCCATCCAACAGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013987:ENSRNOT00000068197:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.130
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(15.4=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(16.1=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:
GAAAGGCCGAGTGGTATCGAG
R:
AAACTGTTGGATGGCTCGGTC
Band lengths:
256-451
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]