HsaALTA0003590-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000148288 | GBGT1
Description
globoside alpha-1,3-N-acetylgalactosaminyltransferase 1 [Source:HGNC Symbol;Acc:HGNC:20460]
Coordinates
chr9:133156020-133161532:-
Coord C1 exon
chr9:133161467-133161532
Coord A exon
chr9:133156066-133156102
Coord C2 exon
chr9:133156020-133156065
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
CAACATGAAGCTGCACTACAAGAGGGAGAAGCCACTCCAGCCCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148288-7-9,7-8-2/2
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=0.071
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:
GGTGTATCTTGAGAACTGGCTGC
R:
CACGGGCTGGAGTGGCTT
Band lengths:
112-149
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