GgaINT0126173 @ galGal3
Intron Retention
Gene
ENSGALG00000007196 | STXBP1
Description
NA
Coordinates
chr17:2827473-2827931:+
Coord C1 exon
chr17:2827473-2827551
Coord A exon
chr17:2827552-2827827
Coord C2 exon
chr17:2827828-2827931
Length
276 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
TCTGCTTCCTCCTCCTGCAGCCT
3' ss Score
10.69
Exon sequences
Seq C1 exon
TCCGTCCACTCTCTCATCAGTGACTTCAAGGACCCCCCCACCTCCAAGTACAGAGCAGCTCACGTCTTCTTCACCGACT
Seq A exon
GTGAGTACCCACAGGGCACTGAAGGCACTGGCAGGTGGAAGGGGAGAAGCTCGTGGTCAGGTTTCTGCATACCAAGAGTGGGATTTGGGCTCCCTGCTCCCAAGGGCAGGGCGTCGCATCCCTCCATTGCAAATGCATCGTGCAAACCAAGAAAAGGGGACGATGCTGCCACTGAAACGTGCACGAGAAAGCAGGGTGGGAGGGATGCTTGGGGCAGGGCACAGGACCATGGGAGCGTGGCCACCTTGCCCTGAGCTCTGCTTCCTCCTCCTGCAG
Seq C2 exon
CCTGCCCCGATGCCCTGTTCAATGAGCTGGTGAAGTCCCGTGCTGCCAAAGTCATCAAGACCCTGACTGAGATCAACATCGCCTTCCTGCCCTCCGAGTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007196:ENSGALT00000040064:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(5.7=100)
A:
NA
C2:
PF0099518=Sec1=FE(7.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCGTCCACTCTCTCATCAGT
R:
GGACTCGGAGGGCAGGAAG
Band lengths:
180-456
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]