GgaINT1026751 @ galGal4
Intron Retention
Gene
ENSGALG00000007196 | STXBP1
Description
syntaxin binding protein 1 [Source:HGNC Symbol;Acc:HGNC:11444]
Coordinates
chr17:2444678-2445028:+
Coord C1 exon
chr17:2444678-2444763
Coord A exon
chr17:2444764-2444873
Coord C2 exon
chr17:2444874-2445028
Length
110 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
ACCCCTCTCCCCCTCTGTAGTGC
3' ss Score
9.87
Exon sequences
Seq C1 exon
GACGCCATCGAGGACAAGCTGGACACCAAGCACTACCCGTACATCTCCACCCGCTCCTCCGCCTCCTTCAGCACCACGGCTGTCAG
Seq A exon
GTGGGTCCCCCCGGTGCCATCATCTGTGTGTGACGCATCACCCCCTATACACGGGTCTGCGAGCCTCCTGTGCCTCGGTTTCCTTTCCTAACCCCTCTCCCCCTCTGTAG
Seq C2 exon
TGCCCGCTACGGCCACTGGCACAAGAACAAGGCCCCCGGCGAGTACCGCAGCGGCCCCCGCCTCATCATCTTCATCCTGGGGGGGGTGAGCATGAACGAGATGCGTTGCGCCTACGAGGTGACGCAAGCCAGCGGCAAATGGGAGGTGCTAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007196:ENSGALT00000011649:16
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=0.019
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(5.0=100)
A:
NA
C2:
PF0099518=Sec1=FE(9.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCGAGGACAAGCTGGACAC
R:
ATTAGCACCTCCCATTTGCCG
Band lengths:
234-344
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]