HsaALTD0006245-2/2 @ hg19
Alternative 5'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
chr9:130658521-130660260:-
Coord C1 exon
chr9:130660235-130660260
Coord A exon
chr9:130660105-130660234
Coord C2 exon
chr9:130658521-130658611
Length
130 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
CCCTTTCTGGTGGCTTGCAGGTG
3' ss Score
10.81
Exon sequences
Seq C1 exon
ATGGCTTGCTCGAGGCCCCCCAGCCA
Seq A exon
GTAAGTGGTGAAACCGGGATTCGCACTGGCAGCTGACATGCTGTACTGACCATGGCCTTCTCAGAGCAGGATTGTGACGGGGCGGACCAGGGGGACGGTGGTCCTGGCTGAGGGCACAGCTCGGGCAAAG
Seq C2 exon
GTGTGAACCCACATCCCTGCCCCCAGGGCCACCTGCAGGACGCCGACACCTACCCCTCAGCAGACGCCGGAGAGAAATGAGTAGCAACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160408-3-13,4-13-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.778 A=NA C2=0.806
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
ATGGCTTGCTCGAGGCCC
R:
GTTGCTACTCATTTCTCTCCGGC
Band lengths:
114-244
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)