GgaINT0126181 @ galGal4
Intron Retention
Gene
ENSGALG00000007196 | STXBP1
Description
syntaxin binding protein 1 [Source:HGNC Symbol;Acc:HGNC:11444]
Coordinates
chr17:2443301-2443609:+
Coord C1 exon
chr17:2443301-2443381
Coord A exon
chr17:2443382-2443470
Coord C2 exon
chr17:2443471-2443609
Length
89 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
GATGGGCGTGTGCTCTGCAGGAC
3' ss Score
8.21
Exon sequences
Seq C1 exon
TACTCCACTCACCTGCACCTGGCCGAGGACTGCATGAAGCACTACCAGGGCACGGTGGACAAGCTGTGCCGAGTGGAACAG
Seq A exon
GTACTGTCCCCCTGCCATCTCCCTGCACCCCGTGGGGACAGCAGCTCAGTGCCACATCTGAGCCTCGGTGATGGGCGTGTGCTCTGCAG
Seq C2 exon
GACCTGGCCATGGGCACCGATGCTGAAGGCGAGAAGATCAAAGACCCCATGAGGGCCATTGTCCCCATCCTGCTGGATGGGAACGTCAGCACCTACGACAAGATCCGCATCATCCTGCTGTACATCTTCCTGAAGAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007196:ENSGALT00000011649:12
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=0.085
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(4.7=100),PF140711=YlbD_coat=FE(26.0=100)
A:
NA
C2:
PF0099518=Sec1=FE(8.3=100),PF140711=YlbD_coat=PD(1.0=2.1)
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:
TACTCCACTCACCTGCACCTG
R:
GTAGGTGCTGACGTTCCCATC
Band lengths:
177-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]