HsaALTA0008259-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000160408 | ST6GALNAC6
Description
ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 [Source:HGNC Symbol;Acc:23364]
Coordinates
chr9:130649033-130649870:-
Coord C1 exon
chr9:130649763-130649870
Coord A exon
chr9:130649064-130649067
Coord C2 exon
chr9:130649033-130649063
Length
4 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GCCCGTCTGCTCTGTCCCAGCCA
3' ss Score
6.52
Exon sequences
Seq C1 exon
GGAGAAGTCTCATTCGTGGTTGAGCACAGGCTGGTTTACCATGGTGATCGCGGTGGAGTTGTGTGACCACGTGCATGTCTATGGCATGGTCCCCCCCAACTACTGCAG
Seq A exon
CCAG
Seq C2 exon
CGGCCCCGCCTCCAGCGCATGCCCTACCACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160408-20-22,20-21-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.331
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=FE(13.3=100),PF155481=DUF4655=PD(6.2=24.3)
A:
NA
C2:
PF0077713=Glyco_transf_29=PD(1.8=3.8)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTACCATGGTGATCGCGGTG
R:
GTGGTAGGGCATGCGCTG
Band lengths:
104-108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)