GgaINT0126170 @ galGal4
Intron Retention
Gene
ENSGALG00000007196 | STXBP1
Description
syntaxin binding protein 1 [Source:HGNC Symbol;Acc:HGNC:11444]
Coordinates
chr17:2439728-2439975:+
Coord C1 exon
chr17:2439728-2439778
Coord A exon
chr17:2439779-2439893
Coord C2 exon
chr17:2439894-2439975
Length
115 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTGATGGCTGCTGTCCTCAGGTG
3' ss Score
8.39
Exon sequences
Seq C1 exon
GAAATTATGCACGATGTGATCCGGAAGGTGAAGAAGAAGGGGGAATGGAAG
Seq A exon
GTGAGCGAGGCTGCAGGAAGAGAAGGAGGGTGGCGAGGATGGAGCTGGGAAGGGATGGGAGCAGGTGGGGCTGTTCCCTGCTGCCCCGTCCCTACCTGATGGCTGCTGTCCTCAG
Seq C2 exon
GTGCTGGTGGTGGACCAGCTCAGCATGCGCATGCTGTCCTCCTGCTGCAAAATGACCGACATCATGACGGAGGGCATCACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007196:ENSGALT00000011649:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=PU(0.2=5.9)
A:
NA
C2:
PF0099518=Sec1=FE(4.9=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:
AAATTATGCACGATGTGATCCGGA
R:
GTGATGCCCTCCGTCATGATG
Band lengths:
130-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]