RnoINT0145621 @ rn6
Intron Retention
Gene
ENSRNOG00000015420 | Stxbp1
Description
syntaxin binding protein 1 [Source:RGD Symbol;Acc:3785]
Coordinates
chr3:11836343-11837525:-
Coord C1 exon
chr3:11837387-11837525
Coord A exon
chr3:11836453-11837386
Coord C2 exon
chr3:11836343-11836452
Length
934 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGA
5' ss Score
8.6
3' ss Seq
CCAGGAGTCTTGTTTTTCAGGTA
3' ss Score
5.94
Exon sequences
Seq C1 exon
GACCTGGCGATGGGCACAGATGCTGAGGGGGAAAAAATCAAGGACCCCATGAGAGCCATTGTCCCCATCCTGCTGGATGCAAATGTCAGCACTTATGACAAAATTCGCATCATCCTTCTCTACATCTTCCTGAAGAACG
Seq A exon
GTAGGAGCCAGCAGGGGGCGGGGGAGGAGCCAGCAGGGGAGGAGCCAGCAGGGGAGGAGCCAGCAGGGGAGGCGCCCACATGGGGGAGGAGCCCCGGGGAGAAGCCTGCAGGGGTTGGGGGAGGAGCCTGCATGGGTGGTGGGGAGGAGGAAGAGGAAGAGGAGGAGGAGCAGAGAGTGAACAGTGCTGATGCCAACCAGCAGCCTGGGGAATGGGGAGAACGGGAGGCCAAGGGGCTTTCCCTGCAAGAACTGCAGTAGAACCAGGTCAGTGCTGCACCTGCTCAGCAGCCCTGAGTGCACAGGAAGCAGATGGAGCCGGCAGGCTCTTCCAGCCAGTTTGCTAGCACTCAGCCTGCCAGATGCCTCCAGGTCGCATCTCATTAGTAACAGAGACCTTTCAACAACTGATACTCAGCCTGTAATCCTTTGGGCGGTAGAGGCAGGAGTATCAGGAGTTCAAGGCCAACCTTAGCTACAAAAGTAAGTTTAAGGCCAGTTCAGACTACATGAGACCCTGTCTAAAACAAACCAACCAAAAAAAAAAAATCTATAAGAACAAACAACAATAAAAACAAAACCAGGGGTTGGGGATTTAGCTCAGTGGTAGAGTGCTTGCCTAGTAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAAAAAGAAAAAAGAAAACAAAACCAATTGTTTTTACCCATGTCATTGTACAAAAAAAATGGGAAGGAGACTTTCTCACCTGGTGACTTTGGTGCAGGGAGCAAGTAGGCAAGGATGGGACTGGGAGGGCAAGCACCCGTGGTCCGCACAGGGCGGCTCTGTTAGAGTGGAAGCTTCTGACCCCACCGTAGATGTGGCTGAGGAGAAGGGAAGCTGAGGCTTTGCCAATGGCAGGGGTTAGGTGTGGTGACCAGGAGTCTTGTTTTTCAG
Seq C2 exon
GTATCACTGAAGAAAACCTAAACAAACTCATCCAGCACGCCCAGATCCCCCCAGAAGACAGTGAGATCATCACCAACATGGCTCACCTCGGGGTGCCCATCGTCACGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015420:ENSRNOT00000021178:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.135
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(8.3=100),PF140711=YlbD_coat=PD(1.0=2.1)
A:
NA
C2:
PF0099518=Sec1=FE(6.5=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:
CTGGCGATGGGCACAGATG
R:
ATCCGTGACGATGGGCAC
Band lengths:
246-1180
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]