GgaINT0126177 @ galGal4
Intron Retention
Gene
ENSGALG00000007196 | STXBP1
Description
syntaxin binding protein 1 [Source:HGNC Symbol;Acc:HGNC:11444]
Coordinates
chr17:2441989-2442701:+
Coord C1 exon
chr17:2441989-2442119
Coord A exon
chr17:2442120-2442593
Coord C2 exon
chr17:2442594-2442701
Length
474 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TGCTTTGCTCCCCCTCCCAGATA
3' ss Score
10.65
Exon sequences
Seq C1 exon
GGTCCGGACAAGGCTCGCTCTCAGCTCCTCATCCTGGATCGTGGCTTCGACCCCGCTTCCCCAGTGCTGCACGAGCTGACCTTTCAGGCCATGAGCTATGACCTGCTGCCCATCGAGAACGATGTCTACAA
Seq A exon
GTGAGTGAGTGCCACTGGTGGGGAGCCGGGTGCTGGCAGCCTCCTGGCGTGAGCAGCTTTGCCCACCTTCAGCCCATTGCCCTTTCCCAACTATTAAGTGAATGGAAGGTGGCAGGACGTGACACCAAGCTGCAGTAGTGTCACCCAGCTGTTGGCAGAGCTGAGTGACCCCTCTGTCCATTTGTGGTCCCTCCATGGTTTCTCTGCATCACCCCATGTCCCCCCATGTCCCTCCATGATTCCTCCATGCTGCCCTATCCTATGTTACCCCATGCCTCCTGTAGTCCTTCCATGGTTCCCTGTGTCTTCCCATGGTCCGTCCATGTTCTCCCATGTTCCACCGTGTCCCTCTATGGTCCCTCCATGATCCTTCCATGTCACCCTGTCGTATGTCACCCCATGCCTCGCATGTCCCCATGTCTCTCTATGCCCCCCTGACCCACGTGTGACCACGTGCTTTGCTCCCCCTCCCAG
Seq C2 exon
ATATGAGACAAGTGGCATCGGGGAGGCGCGGGTGAAGGAGGTTCTCCTGGATGAGGATGATGACCTCTGGGTCTCCCTGCGCCACAAACACATCGCCGAGGTGTCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007196:ENSGALT00000011649:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(7.7=100)
A:
NA
C2:
PF0099518=Sec1=FE(6.5=100),PF140711=YlbD_coat=PU(28.0=75.7)
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:
GTCCGGACAAGGCTCGCTC
R:
TGGGACACCTCGGCGATG
Band lengths:
238-712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]