GgaINT0126183 @ galGal4
Intron Retention
Gene
ENSGALG00000007196 | STXBP1
Description
syntaxin binding protein 1 [Source:HGNC Symbol;Acc:HGNC:11444]
Coordinates
chr17:2443715-2444009:+
Coord C1 exon
chr17:2443715-2443824
Coord A exon
chr17:2443825-2443907
Coord C2 exon
chr17:2443908-2444009
Length
83 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
GTGTCCCCATCCCTTCTCAGTCC
3' ss Score
8.66
Exon sequences
Seq C1 exon
GTATCACCGAGGAGAACCTGAACAAGCTGATCCAGCACGCCCAGATCCCAGCCGAGGACAGCGAGATCATCACCAACATGGCCCACCTCGGGGTGCCCATCATCACAGAC
Seq A exon
GTGAGTGTCTGCCCACCCCACCCAATCTGCACACATCCCCGTGGGGTGGCCCCGTGTCTCACTGTGTCCCCATCCCTTCTCAG
Seq C2 exon
TCCACCCTGCGGCGCCGCAGCAAGCCGGAGCGGAAGGAGCGGATCAGCGAGCAGACTTACCAGCTGTCCCGGTGGACCCCCGTCATTAAGGACATCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007196:ENSGALT00000011649:14
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=0.382
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGAACCTGAACAAGCTGA
R:
GACAGCTGGTAAGTCTGCTCG
Band lengths:
169-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]