RnoINT0145647 @ rn6
Intron Retention
Gene
ENSRNOG00000000994 | Stxbp2
Description
syntaxin binding protein 2 [Source:RGD Symbol;Acc:619967]
Coordinates
chr12:2182964-2183242:+
Coord C1 exon
chr12:2182964-2183042
Coord A exon
chr12:2183043-2183138
Coord C2 exon
chr12:2183139-2183242
Length
96 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
GTCTCTCCCTGCCAATGCAGCGT
3' ss Score
7.23
Exon sequences
Seq C1 exon
TCGGTTCAGGCTCTGATTGCGGACTTCCAGGGGACACCAACCTTCACCTACAAAGCAGCCCATATCTTCTTCACGGACA
Seq A exon
GTGAGTGCGGCTAGCCAGGGTGTCGTCGGGTGCTGTGCTGAGGTGGGGAGTTTGGCCGCAGAACACTGGTCTGATGGTCTCTCCCTGCCAATGCAG
Seq C2 exon
CGTGCCCCGAGCCCTTGTTCAGTGAACTGGGCCGCTCTCGCCTGGCGAAGGTGGTGAAGACACTGAAAGAGATCCACCTCGCCTTCCTCCCCTATGAGGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000994:ENSRNOT00000001322:5
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:
PF0099518=Sec1=FE(4.7=100)
A:
NA
C2:
PF0099518=Sec1=FE(6.1=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:
CTCTGATTGCGGACTTCCAGG
R:
CTCATAGGGGAGGAAGGCGAG
Band lengths:
167-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]