BtaINT0143072 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009178 | STXBP2
Description
syntaxin binding protein 2 [Source:HGNC Symbol;Acc:HGNC:11445]
Coordinates
chr7:17710332-17710770:+
Coord C1 exon
chr7:17710332-17710480
Coord A exon
chr7:17710481-17710685
Coord C2 exon
chr7:17710686-17710770
Length
205 bp
Sequences
Splice sites
5' ss Seq
CAAGTGGGT
5' ss Score
4.82
3' ss Seq
TCTGCCCACCCCATCCCCAGGGG
3' ss Score
9.32
Exon sequences
Seq C1 exon
GTGTTCTCCCTGGATGCCCCCCACAGCACCTACAACCTCTACTGCCCCTTCCGGGCGGGCGAGAGAGCACGGCAGCTGGAGGCACTGGCCCAGCAGATCGCCACCCTGTGCGCCACTCTGCAAGAGTACCCGGCCATCCGCTACCGCAA
Seq A exon
GTGGGTCCCCAGCCAGATGCCGCCCTGACCTTGACCCCATCCTGCTTCCAACCTTGCACCTCTCTTCCAACCCCAGCTCCAGTCCTCACCCTGACCCCTGACTCCCATCCCTAACCCCATCCCTGACTCCCAGTCTGTGCCGACTGGCCCTCCCAAACCCCACACCCTGAGGCACCCACCCCGTGTCTGCCCACCCCATCCCCAG
Seq C2 exon
GGGCCCAGAGGACACAGCACAGCTGGCCCATGCCGTCCTAGCCAAGCTGAACGCCTTTAAGGCAGACACTCCCAACCTGGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009178:ENSBTAT00000012094:7
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=0.138
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(8.9=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.1=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:
GTGTTCTCCCTGGATGCCCC
R:
CAGGTTGGGAGTGTCTGCCTT
Band lengths:
228-433
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]