HsaALTA0003591-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000148288 | GBGT1
Description
globoside alpha-1,3-N-acetylgalactosaminyltransferase 1 [Source:HGNC Symbol;Acc:20460]
Coordinates
chr9:136029529-136030699:-
Coord C1 exon
chr9:136030565-136030699
Coord A exon
chr9:136029630-136029648
Coord C2 exon
chr9:136029529-136029629
Length
19 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
GACCGGGTGATCATCACTAGGTA
3' ss Score
4.08
Exon sequences
Seq C1 exon
GCCCACACAGCTGCTGACACTCACACCCTGGTTGGCGCCCATCGTCTCCGAGGGAACCTTCAACCCAGAGCTTCTGCAGCACATCTACCAGCCACTGAACCTGACCATTGGGGTCACGGTGTTTGCCGTGGGGAA
Seq A exon
GTACACTCATTTCATCCAG
Seq C2 exon
TCCTTCCTGGAGTCAGCCGAGGAGTTCTTCATGCGTGGGTACCGGGTGCACTACTACATCTTCACTGACAACCCTGCAGCCGTTCCCGGGGTCCCGCTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148288-8-11,8-10-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.049 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF034148=Glyco_transf_6=FE(40.2=100)
A:
NA
C2:
PF034148=Glyco_transf_6=PD(0.9=0.6)
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCAACCCAGAGCTTCTGC
R:
CCCACGCATGAAGAACTCCTC
Band lengths:
118-137
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)