RnoINT0135447 @ rn6
Intron Retention
Gene
ENSRNOG00000016932 | Simc1
Description
SUMO-interacting motifs containing 1 [Source:RGD Symbol;Acc:2319689]
Coordinates
chr17:10603217-10603580:-
Coord C1 exon
chr17:10603424-10603580
Coord A exon
chr17:10603302-10603423
Coord C2 exon
chr17:10603217-10603301
Length
122 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
TGCTTTTACTGTCTCTGCAGTCA
3' ss Score
8.23
Exon sequences
Seq C1 exon
GGAGATGTTCTTTACTACCATGGAAAGCCACCTTCTGCGATGCAAAGTCTTAGAGATCATATTCCTCCACAGCTGTGAGACACCCACCCGTCTCCCCTTGTCTCTGGCCCAGGCCCTCTATTTTCTGAACAACTCCACATCCCTGCTCAAGTGTCAG
Seq A exon
GTACTTCCTTCCTGCTTCCGGTCCTTTCTCCTGATCCTGCTGTCTGGGCCTCGTGTGAGAGGTTTGGAAACTGTACTCTAATGGGAACCATTGATTATCCGCTGCTTTTACTGTCTCTGCAG
Seq C2 exon
TCAGATAAAAGCCAGTGGCAGACGTGGGATGAGCTGGTTGAACATCTGCAGTTCCTGTTGTCCAGTTATCAACATGTGCTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016932:ENSRNOT00000022980:9
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGATGTTCTTTACTACCATGGA
R:
CTCTCAGCACATGTTGATAACTGGA
Band lengths:
242-364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]