GgaINT0036892 @ galGal4
Intron Retention
Gene
ENSGALG00000002001 | STXBP3
Description
syntaxin-binding protein 3 [Source:RefSeq peptide;Acc:NP_001073202]
Coordinates
chr8:1282497-1283490:+
Coord C1 exon
chr8:1282497-1282595
Coord A exon
chr8:1282596-1283404
Coord C2 exon
chr8:1283405-1283490
Length
809 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
GTCTTTGTTTTGTCTTGAAGGAT
3' ss Score
9.77
Exon sequences
Seq C1 exon
TCAGCTGTTCAGCAACAAAAACAACCAAGGAGGGACCGCTCTTCAGAAGAAACTTTTCAACTCTCTAGGTGGACGCCTCTTATAAAAGATGTTATGGAG
Seq A exon
GTAAATTTGACCTACTAATAATTTGAGTGCATTGCAGAGAGATGCTAAGTGTGCAGTTGTATTCAATCTTTCGAAATTCAATTATGCTCCATATTCTGTTGAATAACCACTTCAAATGTCTTGATAACTAGAGTGCTGTGCGCCTTGCTGTTTGCCTTAAACGTTGATTTTCTTCCATCTTAAGTGTTTCTTTGAACTGCCTATCACGTCATCAGTAATATTCTGTGTGAACTAGATCTGGTTATTACCTGCTTCTGTTATTGTTCTGGTTTTCCTTCAGCAGGTCTTCAATTTGTAATGCAAATCTAAAATGCAGATGTGTAAAGGCCAGAAAATTGTACTTGGCATCAGATTGTCACTGATGTCTGGCAGAATAGCAGGGTTGCTAGGTAATTTTTCTGCCCCAGTGCAGTCATTTGCAGGTTTTTGTTAACTTGATGGATACATAAACCTAATGTCTCTTCAGGGATCTATTACTTCTCTCATATTGGTGTTTGGAAAAACAAAGTAAGTCAGGGTGATTGCTGATGGAGAAACTACTAGTAGTACCTGAATGATCAAATCAGTATTCTTTTTTGGGAAGAAAGCATGCGTACTCTCATTTCCTAATGATATAGAAAAGGCTTAGAATAACTTATAGCTTTATGTGGTGTGTTTTTTTGCTATATTGAAACACTGTTGTTGGGATATTGGTTGCCGTTCTGAGAATTTACTTGAAATTCCAGTTAGGTATCCTTATTGGAAGTTGAAACTTGATTGGCTTTTGTTTTCCATGTCTTTTCAAAGTGAGTCTTTGTTTTGTCTTGAAG
Seq C2 exon
GATGCTATAGAAAACAAACTGGATTCCAAAGAATGGCCTTATTGTTCCCAGTGTCCTCCTACCTGGAATGGCTCAGGAATAGTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002001:ENSGALT00000003116:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.455 A=NA C2=0.103
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(5.9=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.1=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:
TCAGCTGTTCAGCAACAAAAACA
R:
ACTATTCCTGAGCCATTCCAGGT
Band lengths:
182-991
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]