GgaINT0126177 @ galGal3
Intron Retention
Gene
ENSGALG00000007196 | STXBP1
Description
NA
Coordinates
chr17:2829014-2829726:+
Coord C1 exon
chr17:2829014-2829144
Coord A exon
chr17:2829145-2829618
Coord C2 exon
chr17:2829619-2829726
Length
474 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TGCTTTGCTCCCCCTCCCAGATA
3' ss Score
10.65
Exon sequences
Seq C1 exon
GGTCCGGACAAGGCTCGCTCTCAGCTCCTCATCCTGGATCGTGGCTTCGACCCCGCTTCCCCAGTGCTGCACGAGCTGACCTTTCAGGCCATGAGCTATGACCTGCTGCCCATCGAGAACGATGTCTACAA
Seq A exon
GTGAGTGAGTGCCACTGGTGGGGAGCCGGGTGCTGGCAGCCTCCTGGCGTGAGCAGCTTTGCCCACCTTCAGCCCATTGCCCTTTCCCAACTATTAAGTGAATGGAAGGTGGCAGGACGTGACACCAAGCTGCAGTAGTGTCACCCAGCTGTTGGCAGAGCTGAGTGACCCCTCTGTCCATTTGTGGTCCCTCCATGGTTTCTCTGCATCACCCCATGTCCCCCCATGTCCCTCCATGATTCCTCCATGCTGCCCTATCCTATGTTACCCCATGCCTCCTGTAGTCCTTCCATGGTTCCCTGTGTCTTCCCATGGTCCGTCCATGTTCTCCCATGTTCCACCGTGTCCCTCTATGGTCCCTCCATGATCCTTCCATGTCACCCTGTCGTATGTCACCCCATGCCTCGCATGTCCCCATGTCTCTCTATGCCCCCCTGACCCACGTGTGACCACGTGCTTTGCTCCCCCTCCCAG
Seq C2 exon
ATATGAGACAAGTGGCATCGGGGAGGCGCGGGTGAAGGAGGTTCTCCTGGATGAGGATGATGACCTCTGGGTCTCCCTGCGCCACAAACACATCGCCGAGGTGTCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007196:ENSGALT00000040064:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(9.3=100)
A:
NA
C2:
PF0099518=Sec1=FE(7.8=100),PF140711=YlbD_coat=PU(28.0=75.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCGGACAAGGCTCGCTC
R:
TGGGACACCTCGGCGATG
Band lengths:
238-712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]