GgaINT0126182 @ galGal4
Intron Retention
Gene
ENSGALG00000007196 | STXBP1
Description
syntaxin binding protein 1 [Source:HGNC Symbol;Acc:HGNC:11444]
Coordinates
chr17:2443471-2443824:+
Coord C1 exon
chr17:2443471-2443609
Coord A exon
chr17:2443610-2443714
Coord C2 exon
chr17:2443715-2443824
Length
105 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
CTCACCCATTTCACACGCAGGTA
3' ss Score
8.57
Exon sequences
Seq C1 exon
GACCTGGCCATGGGCACCGATGCTGAAGGCGAGAAGATCAAAGACCCCATGAGGGCCATTGTCCCCATCCTGCTGGATGGGAACGTCAGCACCTACGACAAGATCCGCATCATCCTGCTGTACATCTTCCTGAAGAACG
Seq A exon
GTGAGGGAGGGGGGGATGTGCAGGAAGGGGGCCAGGAGGAGCCAAACGTGGTGGCCATTGAGGTGGGCGTCCCAAAGGGTCAGCGCTCACCCATTTCACACGCAG
Seq C2 exon
GTATCACCGAGGAGAACCTGAACAAGCTGATCCAGCACGCCCAGATCCCAGCCGAGGACAGCGAGATCATCACCAACATGGCCCACCTCGGGGTGCCCATCATCACAGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007196:ENSGALT00000011649:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(8.3=100),PF140711=YlbD_coat=PD(1.0=2.1)
A:
NA
C2:
PF0099518=Sec1=FE(6.5=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:
ACCGATGCTGAAGGCGAGAAG
R:
GTGGGCCATGTTGGTGATGAT
Band lengths:
210-315
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]