BtaINT0143080 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007330 | STXBP3
Description
syntaxin binding protein 3 [Source:HGNC Symbol;Acc:HGNC:11446]
Coordinates
chr3:34694270-34695498:-
Coord C1 exon
chr3:34695360-34695498
Coord A exon
chr3:34694377-34695359
Coord C2 exon
chr3:34694270-34694376
Length
983 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATA
5' ss Score
5.05
3' ss Seq
TTCATTTTTATTTATCTAAGGAA
3' ss Score
5.52
Exon sequences
Seq C1 exon
GACCTGGCACTTGGGACTGATGCAGAAGGACAGAAAGTCAAAGATGCTATGCGAGTACTCCTTCCAGTTCTACTCAGTAAAAATCATGATAATTATGATAAAATAAGAGCAATCCTACTTTATATCTTCAGTATTAATG
Seq A exon
GTAATATAGATTGTTTATTTTTTAATAAATATATTAAGATAAAGATCAGTTCAGTTCAGTCGCTCAGTCGTGTCTGACTCTTGGCGACCCCATGAATAGCAGCACGCCAGGCCTCCCTGTCCATCACCAACTCCCAGAGTTCACTCACACTCATGTCCATCGAGTTGGTGATGCCATCCAGCCATCTCATCCTCTGTCGTCCCCTTCTCCTCCTGCCCCCAATCCCTCCCAGCATCAGGGTCTTTTCCAATCAGTCAGCTGTTCACATGAGGTGGCCACAGTATTGGAGTTGCAGCTTTAGCATCATTCCTTCCAAAGAACACCCAGGGCTGATCTCCTTTAGGATGGACTGGTTGGATCTCCTTGCAGTCCAAGGGACTCTCAAGAATCTTCTCCAACACCACAGTTCAAAAGCATCAATTCTTCGGCACTCAGCTTTCTTCACAGTCCAACTCTCACATCCATACATGACCACAGGAAAAACCATAGCCTTGACTAGACGGACCTTTGTTGGCAAAGTAATGTCTCTGCTTTTGAATATGCTATCTAGGTTGGTCATAACTTTCCTTCCAAGGAGTACCCAGATCTAAAATTACTTTACAATAAGTGGTTTACTACTGGTCATAAGAGAATCTTAGAAAAATTAAAGTGAAAGTGAAAGTCGCTCAGTCGTGTCTTTTTGCGACCCCATGGACTGTAAAGTCCATGGAATTCCCCAGGCCAGAATACTGGAGTAGGTAGCCTTTCCCTTCTCCAGGGGATCTTCCCAACCCAGGGATCAAACCCTGGTAGAATCAAAAGTAGTGGTTAAAGTTGATTAAGATAAATAAAAGGAAAAATGTGGAATTGGGAGCAGATTGAAGGTTATATAATTTAAATGTTTGCTTTCTTTAAAAAAAAAAAGCTTTATTCTTGGGTACGTAAACCTAGAAATGATTGTGGTAGCAATTATTTGACTGTGCATTCATTTTTATTTATCTAAG
Seq C2 exon
GAACTACAGAAGAAAACTTGGACAGATTGATCCAGAATGTAAAGATAGAAAATGAGAGTGACATGATTCGTAACTGGAGCTACCTCGGTGTTCCCATTGTCCCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007330:ENSBTAT00000009642:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.056
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(8.4=100)
A:
NA
C2:
PF0099518=Sec1=FE(6.4=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:
GACCTGGCACTTGGGACTGAT
R:
AACACCGAGGTAGCTCCAGTT
Band lengths:
231-1214
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]