GgaINT0036889 @ galGal4
Intron Retention
Gene
ENSGALG00000002001 | STXBP3
Description
syntaxin-binding protein 3 [Source:RefSeq peptide;Acc:NP_001073202]
Coordinates
chr8:1279845-1281332:+
Coord C1 exon
chr8:1279845-1279925
Coord A exon
chr8:1279926-1281193
Coord C2 exon
chr8:1281194-1281332
Length
1268 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
TTGCTTTGTTTGTAATTTAGGAC
3' ss Score
8.84
Exon sequences
Seq C1 exon
CAAGTTGTCCATCTTAATATAGCAGAAGACTGCATGAGCAAGTTCAAAGCTAACATAGAAAGGCTTTGTAAAACTGAACAG
Seq A exon
GTACGTTTCAAACAAGCTGGAAAAGAAAAATACAGCAACCCAGTAAAACTAGTGCAAATGTAACTGGATTGTCTTTGAGAACAGGTGCTGATATACGCTACAGATACGCTATGTATATAATACGTAATGTATATATGTCTGTAAACACTAAATTTATATAATTGTGTATATATACTAAATATGTTACAAATACAATACTTATAAATAATATAAATATCTGTGTGCATATGTCTATATATTATATAATGGATACACTAGTTTACATCCTTTTTTTTCCTGTTATTTTGGCAGCATTAATACTAGAATTTAATTAAACGTGCAAGATTCTGAACAATTAAGGTGTTCCTGTTAGGGTCTTTTACATTTGAATCCAGCTGATCTGTATAAAGGTTACCTTCTTATTTTCTTTCTAATCTCCAATGTAGTTGCCTTACTACGTTCTGACAAAGGAGACACTTCCTAAATATCTGAGAAAAGCACGTGTTTGAATTACAGTTGTAATTGCAGTTATACTAGCAGTCTTAATTATAAACTAAATTCATATTAATGTGAATTTTGGATTGCTGCATGAAAAGAGGGTGGCCAGCAGGGAGAGCGAAGTGATTGTCCCAGCTCTGCCCTGCCCTGGTGAGGCCCCATATGGAATTCTGTGTCCAAGCCTGGGGCCCCCCTCAATGGAGGGATGAAGAGCTGTTGGAGCGGGTCCAGAAGAAAGCCACAAAGATGATCAGAGGACTGGAGCACCAGTCTGGAGCAGATTAAACTATTTTTGCATTCATACTTTGAGACACTTTTGGGTTGTAGAATACAGTAATTTTGGAGGAGAGGAGAGATGAATTTTTTTTTTGTAGTTTGGAATGGAACTACAATAACCTGATGTTTCATGTCTAAAATACTGATACATCAATGGCTGTAGCTGCTTACATTTGAGCTGCTGGCTCATCCCTCTTAAGCAGATGGAATGTCTTTGATATTTTTAGGAGAACTTTTATCTGTTTTGCCTGACCAATAGTCTAGGAGCTTTTTCAATGTCCACTGCAAACTCAGTTTCAATTTTTTATATGCATTATGTAGTATTATTATGATGTTGTAATTGTTCAAATAATTAAGTCAAAAGATTTTCATAATGAATTTAAATTGGTGCATCTTTTGTTGTTTTTTTTTTCCCGTGGCCTACAGTTCCATAAAAATGTATTTCAAGACATAGAACAGCTATGCTTTCCTTAAATGAATATTCACTAACATTATTTGCTTTGTTTGTAATTTAG
Seq C2 exon
GACTTGGCTCTTGGAACTGATGCAGAAGGTCAAAAAGTGAAGGACACCATGAGAGTCCTCCTTCCGGTTCTGCTTAACAAAAGTCATGACAGCTATGATAAAATTAGAGCTATTCTCCTGTATATCTTCAGTACAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002001:ENSGALT00000003116:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.043
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(4.8=100)
A:
NA
C2:
PF0099518=Sec1=FE(8.4=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:
TGTCCATCTTAATATAGCAGAAGACT
R:
ACTGAAGATATACAGGAGAATAGCTC
Band lengths:
208-1476
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]