BtaINT0143063 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009178 | STXBP2
Description
syntaxin binding protein 2 [Source:HGNC Symbol;Acc:HGNC:11445]
Coordinates
chr7:17713568-17714473:+
Coord C1 exon
chr7:17713568-17713677
Coord A exon
chr7:17713678-17714377
Coord C2 exon
chr7:17714378-17714473
Length
700 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGC
5' ss Score
6.16
3' ss Seq
CCCACCCGCCCCACCTGTAGAGC
3' ss Score
7.76
Exon sequences
Seq C1 exon
GTGTGAGCGAGGAGAACCTGGCCAAGCTGATTCAGCACGCCAATGTGCAGGCACACAGCAACCTCATCAGGAACCTGGAGCAGCTGGGGGGCACTGTCACCAACCCTGGG
Seq A exon
GTATGCTGGGCAGGGAGAGGGCACTGAGTCAGAGGGGGTGACTGGGGTCAGAGGGCACATCACCAGGGCGGGGACACACCAGGCGTGATGTGGTTCTGGGAGCACGGGGAGCCCTGAGTAGGGTCTGGGGATTGGGGGGCAGCAGGGCTGTTCCGAGTCTCAGAGTCACAGGAGAAGTGGGGGCCATGAGGCATAGAGCCCGAGTCCTAGTGGTGCTGCCGTGTGGGGCGTGTGGTCCACGTCCCACAGGTCGATAGCTGGGTCCCCAGCAGGGGACCCTGGGCTCCCGGAGGTCTCAGGGCCTCCAGTCCACCCGGAACACACTCAGCAGCTTCCTGGGCTCGGCTCTCAACACGTCCCTCCTCCCTCGACCTTGCCTCCGCTGCCGCTCGACTGCAGGCACCTCTCGTGTTCTCCCCCTGCCTGCCCTCTGCCTCTCTCCCAGGCGCCCCCGTCTGTCACCCTGTCCACCTCCTCTCAGTCCCCCTGTTTCTGTGTCCTCCGTCGTCAGTCCCCATCTCTCTCAGTCCTGATTTCTTCTTTGTCTCGTCTTGGTTTCATCACCTGTGTATTTCTTCCTCCCTCCCTCTTGTTTTCCTTCCTCGCTCTGTCTGCAACCTCCCCCAGCCCGACAAGCCCCATCCGTGACCTGCCTCCTTCTCCCTAATTCCCCCACCAACCCCACCCGCCCCACCTGTAG
Seq C2 exon
AGCTCTGGGACCACCAGCCGACTGGAGCGGAGGGAGCGCTCAGAGCCCACCTATCAGCTGTCTCGCTGGACCCCGGTCATCAAGGATGTGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009178:ENSBTAT00000012094:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.469
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(6.5=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTGAGCGAGGAGAACC
R:
TCACATCCTTGATGACCGGGG
Band lengths:
201-901
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]