BtaALTA0029108-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000007330 | STXBP3
Description
syntaxin binding protein 3 [Source:HGNC Symbol;Acc:HGNC:11446]
Coordinates
chr3:34718493-34719231:-
Coord C1 exon
chr3:34719182-34719231
Coord A exon
chr3:34718562-34718574
Coord C2 exon
chr3:34718493-34718561
Length
13 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TAATTTATATTCATTTTAAGATA
3' ss Score
6.91
Exon sequences
Seq C1 exon
AGATAAAAGCAACAGTGTTTGATGACTGCAAGAAAGAAGGCGAATGGAAG
Seq A exon
ATATTGCTTCTAG
Seq C2 exon
ATGAATTTACCACTAAGCTTTTGGCATCATGTTGCAAAATGACAGATCTTCTAGCAGAGGGTATAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007330-2-2,2-1-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=PU(0.2=5.9)
A:
NA
C2:
PF0099518=Sec1=FE(19.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAACAGTGTTTGATGACTGCA
R:
ACCCTCTGCTAGAAGATCTGTCA
Band lengths:
104-117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development