RnoINT0145622 @ rn6
Intron Retention
Gene
ENSRNOG00000015420 | Stxbp1
Description
syntaxin binding protein 1 [Source:RGD Symbol;Acc:3785]
Coordinates
chr3:11835770-11836452:-
Coord C1 exon
chr3:11836343-11836452
Coord A exon
chr3:11835872-11836342
Coord C2 exon
chr3:11835770-11835871
Length
471 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGG
5' ss Score
6.35
3' ss Seq
TGGTGTGTGCTTGCATTCAGTCC
3' ss Score
6.25
Exon sequences
Seq C1 exon
GTATCACTGAAGAAAACCTAAACAAACTCATCCAGCACGCCCAGATCCCCCCAGAAGACAGTGAGATCATCACCAACATGGCTCACCTCGGGGTGCCCATCGTCACGGAT
Seq A exon
GTAAGGGCCAGGTCATAGGCAGGGAGACCGTGGGAGGTTGGCATACTGTATCCTCGCCACGTTCATGATTGACCAGACCAGTGACCGGCAGCTGGCGGCGTTTGGTGTTTTCAGTACCTGGGTCACAAAAGGCTCAAAACAGTAGAACTGGTTCATGTAAAACAGCCCGTGCTGCTGACATGAAAACATGAAACAGAAACCCAGGGCCACACACACACACACACACACACACACACACACACACACACTGTCTCAAACTCAAAAAACCCTGTCTCAAAGAATCAAAACAAAACAAAATCCCAGAAAACCCAGACTTTCTCAAGACTCCTTGTTTCAGAGTCTCTTGAGGAGGTCTATTTCAGAGCTACACCTCTCCTTTATTACTCTTTGCCAATGCTAAGCGGGTCCTTAAGAGAATTCCTAGAAGTCGCTGAGACCCATCTAACTGACCTGGTGTGTGCTTGCATTCAG
Seq C2 exon
TCCACACTACGCCGCAGAAGCAAGCCGGAGCGGAAGGAGCGCATCAGTGAGCAGACCTACCAGCTCTCACGATGGACCCCGATCATTAAAGACATTATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015420:ENSRNOT00000021178:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.382
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(6.5=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.9=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:
CACTGAAGAAAACCTAAACAAACTCA
R:
TCCATAATGTCTTTAATGATCGGGGT
Band lengths:
207-678
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]