RnoINT0145653 @ rn6
Intron Retention
Gene
ENSRNOG00000020392 | Stxbp3
Description
syntaxin binding protein 3 [Source:RGD Symbol;Acc:619968]
Coordinates
chr2:211608001-211608278:-
Coord C1 exon
chr2:211608183-211608278
Coord A exon
chr2:211608059-211608182
Coord C2 exon
chr2:211608001-211608058
Length
124 bp
Sequences
Splice sites
5' ss Seq
GGAGTATGT
5' ss Score
4.82
3' ss Seq
TTTTTCTGACAATCTGACAGGGA
3' ss Score
5.51
Exon sequences
Seq C1 exon
ATATAAAACAGATGGGAAAGAGAAGGAGGCAGTTCTTGAAGAAGATGATGACCTGTGGGTGCGGGTTCGGCACCGGCACATCGCGGTTGTTTTGGA
Seq A exon
GTATGTGAGCCTGTTCTAACTTTGTTCTGTAGTTTTTAGGAACTAAATTATACTAAAGTCTATTTTACACCTTACAATAGTTTTGTGAAGAACTAACTTAGACATTTTTCTGACAATCTGACAG
Seq C2 exon
GGAAATTCCAAAGCTTATGAAGGAAATTTCATCAACAAAGAAAGCTACAGAGGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020392:ENSRNOT00000027666:10
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=0.050
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(5.9=100)
A:
NA
C2:
PF0099518=Sec1=FE(3.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATATAAAACAGATGGGAAAGAGAAGG
R:
CTTCCCCTCTGTAGCTTTCTTTGT
Band lengths:
154-278
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]