GgaINT0126175 @ galGal4
Intron Retention
Gene
ENSGALG00000007196 | STXBP1
Description
syntaxin binding protein 1 [Source:HGNC Symbol;Acc:HGNC:11444]
Coordinates
chr17:2441406-2441884:+
Coord C1 exon
chr17:2441406-2441554
Coord A exon
chr17:2441555-2441799
Coord C2 exon
chr17:2441800-2441884
Length
245 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
GTCCCTTCCTTCTTCCCCAGGGA
3' ss Score
11.68
Exon sequences
Seq C1 exon
GTTTACTCCCTGGATTCAGCAGACTCCTTCCAAAGCTTCTACAGCCCTCACAAGGCGCAGATGAAGAACCCGATCCTGGAGAGGCTGGCAGAGCAGATTGCCACTCTGTGTGCCACACTGAAGGAGTACCCGGCCGTGCGGTACCGCGG
Seq A exon
GTAAGGCTGCAGGGCTGGGAGGTGGAAGGCTTAAAGCCAGGGGATGCTCTGCAGAGCTGGGATCCAGGGGGCATCTCCTGTGGGATAGACGAAGGGAAAGCAGAGCGTCGTGTTCCCCAAGGAGAGGTGAAAAGGAGCAGCAAATGGTGCTCAGGTCCCATTTCTCCCCTGAGCCAAAGACATCACAGTGACTCCCCCCCACCCTTTGCACAGCCGGGGGCTGACGTCCCTTCCTTCTTCCCCAG
Seq C2 exon
GGACTACAAGGACAACGCCATGCTGGCGCAGCTCATCCAGGACAAGCTGGATGCCTACAAGGCTGATGACCCCACTATGGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007196:ENSGALT00000011649:6
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=0.241
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(8.8=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTACTCCCTGGATTCAGCAGAC
R:
CCATAGTGGGGTCATCAGCCT
Band lengths:
228-473
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]