GgaINT0036882 @ galGal4
Intron Retention
Gene
ENSGALG00000002001 | STXBP3
Description
syntaxin-binding protein 3 [Source:RefSeq peptide;Acc:NP_001073202]
Coordinates
chr8:1274342-1275736:+
Coord C1 exon
chr8:1274342-1274496
Coord A exon
chr8:1274497-1275645
Coord C2 exon
chr8:1275646-1275736
Length
1149 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
TTTGTTTCCTGTTTTCCCAGCAC
3' ss Score
7.34
Exon sequences
Seq C1 exon
GTATTTACACTCAATGTCCCAGATGCCTTCTACTGTTGTTACAGTCCAACTCTAGAAAATTCCAAGGATAAAGATGCTGTGATGGAAGCAATGGCTGAACAAATTGTTACCTTGTGTGCCACTCTAGAAGAGAATCCAGGAGTGCGGTGTAAAAG
Seq A exon
GTGGGCTGTTTTATTTGTGTATTAGTTTTCGCTTGTGCTACATTATTTGATAATAGCTCAAGGCCATAGAAGTGGCATTCTGGAATGTAATGTTATTCTTATGTGTTAATCTTTTCAAAGGTGAAGAAGCAATAATTGCTTGACCATTTGTTGTTGTGTTTCTTCTTCGTTTTGTTTTTGTTTTTCCTTTTCCAAGGGAAGGAGAGAGTCAGGAAGTTTTTAAGTGTGAAAGTTTTATTTATGGTTTGACCACAGATTTATCTTGTGACCTTAAACTTATTTTTGAGGTAAAATTTATAATTGAAATACAGATGTGTCATGCGTTGCATGCTCCAACAGTAATGCTTGTCCAGTGTTTGTTGCACCTATTCTGTGTATGCACTAGTTAAATGGTATGTGTTGCATTTGCTTATTGATTGGATATGTGTCTGTAATAACCATCACACATGAGAAATTCTAGCATTTTTGCATGGGTAGCATTGATCAAACGTTTGTTCTTGATGTGCTTTCCTGAACTGTAGTTTAATTTCTAAAATAGACTCAGGTTTCTTTTAAGAGGAAAAATAAAACAATTCTCCTTACTAGTTAAAAAGAAGTCTCTTTTGTAGTATATTGTAAGCAAATAAATGCATGTTCTCTTCTTTTAAAAACTGTACTATTTGTGGATTCCAGCTGCTAATATATGGGATGTGTAGGTACCTGAATATTCATTAATGAGACTTGTAGTAACGATTTGAAGACTTTTCCATTAATATCTGCTCTGAGTGTTGCTCTGCTTCAGCCGCAGTACCATCTGGCTTTGCAGCTGAGGTGTTACTCTGCATGTCTGTGCCTATCGGAAAAGCTGTGGAGTTATGGCCATTGCGAGAGGCTATGTGCACTTTGTAGATTGGGTTCTGCTTAAAACTTAAAGCAAAGTTGCAGCTGTCTTATGCGTAATTATTTGGAAAGCAGGCAAAGGTAATTACGGGCTTTCAAACAGCACCTTTGGGCTTTTGACCGTGTGTTGGTTTTGGGCTCAAGTGCATGTCTTCAACACCTGAGAAGTTCTGTTGCTGGGCTGTGAGAGTAGGAAATATTTGTTTTAAACGTAGCATTGGAATGTTTTCATGCAGTGATTTAAGTTGCTTTTGTTTCCTGTTTTCCCAG
Seq C2 exon
CACACCATCAGATAATGCCAGCAGACTTGCACAGCTTGTTGAAAAAAAGCTTGAGAATTACTACAAAACTGATGAGCAAAGCCAAATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002001:ENSGALT00000003116:7
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=0.032
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(20.6=100)
A:
NA
C2:
PF0099518=Sec1=FE(12.1=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:
GTATTTACACTCAATGTCCCAGATGC
R:
CTTTATTTGGCTTTGCTCATCAGT
Band lengths:
246-1395
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]