GgaINT0036890 @ galGal4
Intron Retention
Gene
ENSGALG00000002001 | STXBP3
Description
syntaxin-binding protein 3 [Source:RefSeq peptide;Acc:NP_001073202]
Coordinates
chr8:1281194-1282058:+
Coord C1 exon
chr8:1281194-1281332
Coord A exon
chr8:1281333-1281951
Coord C2 exon
chr8:1281952-1282058
Length
619 bp
Sequences
Splice sites
5' ss Seq
ATGGTACGT
5' ss Score
9.89
3' ss Seq
TTGTTTTTCTTACATCAAAGGAA
3' ss Score
6.31
Exon sequences
Seq C1 exon
GACTTGGCTCTTGGAACTGATGCAGAAGGTCAAAAAGTGAAGGACACCATGAGAGTCCTCCTTCCGGTTCTGCTTAACAAAAGTCATGACAGCTATGATAAAATTAGAGCTATTCTCCTGTATATCTTCAGTACAAATG
Seq A exon
GTACGTTAAGCTGCTTTGCTGTTTATCTCAGTGTTATGGACTTCATTTCAAATTCTGTGGTAGAGCCCAGTATTTTTACTTAACTTAAGCAGTTGGCCAAGTTTGGAAGAAATCTTGTCTGTCCTCTGTAGCTTCTCTTCCCACATAGGACACGAAAGATAATAAAGATACTTTTGATAAAGAAATAAGGATTTCAATACAAGCACAATCCTTATTCTTTTTTAGTATCATTCTTGTGCTTGAATGTGTGCAACGACTTAATTTTGTCCTTTCCATGTAATCCTGAAGCTGTTAAAGGGAGAGCTCCATGTCCACTGCAGCCTGAAAATGGGGAGGAATCTGTACTAAAAAAAACAGTATATTTACAGAATGTAGGTTTGAAGAATCTCTAACAATATTGAGCTCTGTTCTCAAAAGAGGACCACTGAACCAAGTTTTTTTTATCTAAAATAGACTATGCTAAAATTGTGTACTGGCTAATCAAAAAATAAAACAAACAAAAAAACCCAACCAAATAAAGGTATTAATTAAAAAAACAATAGCCCAGAATGCATGAGCTAAAATTAGTCTCACTGACAGTCATATGGTAACTAAGTCATTTGTTTTTCTTACATCAAAG
Seq C2 exon
GAACTACCGAGGAGAACTTGGACAAGCTGATCCAGAATGTGCAAATAGAAAGTGATAGTGATATGATAAGAAACTGGGAATACCTTCATGTTCCTATTACCAATTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002001:ENSGALT00000003116:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.111
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(8.4=100)
A:
NA
C2:
PF0099518=Sec1=FE(6.4=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:
GACTTGGCTCTTGGAACTGATG
R:
TGAATTGGTAATAGGAACATGAAGGT
Band lengths:
246-865
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]