HsaALTA0003590-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000148288 | GBGT1
Description
globoside alpha-1,3-N-acetylgalactosaminyltransferase 1 [Source:HGNC Symbol;Acc:20460]
Coordinates
chr9:136031402-136036919:-
Coord C1 exon
chr9:136036854-136036919
Coord A exon
chr9:136031453-136031489
Coord C2 exon
chr9:136031402-136031452
Length
37 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGT
5' ss Score
8
3' ss Seq
CTGAGTGTCTCTGTCCCCAGACC
3' ss Score
10.07
Exon sequences
Seq C1 exon
GGTGTATCTTGAGAACTGGCTGCCAGTCTCCTATGTCCCCTATTATCTCCCCTGCCCAGAGATCTT
Seq A exon
ACCCATGATGATGGCTCTTTCTTGCCTCTGCCACCAG
Seq C2 exon
CAACATGAAGCTGCACTACAAGAGGGAGAAGCCACTCCAGCCCGTGGTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148288-2-5,2-4-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.061
Domain overlap (PFAM):
C1:
PF034148=Glyco_transf_6=FE(19.6=100)
A:
NA
C2:
PF034148=Glyco_transf_6=FE(15.2=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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:
GTATCTTGAGAACTGGCTGCCA
R:
CATACCACGGGCTGGAGTG
Band lengths:
114-151
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)