HsaALTA0007500-3/3 @ hg19
Alternative 3'ss
Gene
ENSG00000100241 | SBF1
Description
SET binding factor 1 [Source:HGNC Symbol;Acc:10542]
Coordinates
chr22:50906000-50906352:-
Coord C1 exon
chr22:50906215-50906352
Coord A exon
chr22:50906041-50906122
Coord C2 exon
chr22:50906000-50906040
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
CGTCTCCCCCTGACCCCCAGCAG
3' ss Score
5.51
Exon sequences
Seq C1 exon
TTTTGCCAGCCCAGCGGGTGGCAGCTGTGTCCCGAGAGGAATCCACCGACCTTCTTTGTTGCTGTCCTCACCGACATCAACTCCGAGCGCCACTACTGCGCCTGCTTGACCTTCTGGGAGCCAGCGGAGCCTTCACAG
Seq A exon
CAGGAAACGACGCGCGTGGAGGATGCCACAGAGAGGGAGGAAGAGGGGGATGAGGGAGGCCAGACCCACCTGTCTCCCACAG
Seq C2 exon
CACCTGCCCCATCTGCCCAGCTGTTTGCACCGAAGACGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100241-3-7,3-6,3-5-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.551
Domain overlap (PFAM):
C1:
PF0345613=uDENN=PD(60.3=82.6)
A:
NA
C2:
PF0214116=DENN=PU(9.8=34.0)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAGCTGTGTCCCGAGAG
R:
AGCGTCTTCGGTGCAAACAG
Band lengths:
159-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)