HsaALTA0003591-2/3 @ hg38
Alternative 3'ss
Gene
ENSG00000148288 | GBGT1
Description
globoside alpha-1,3-N-acetylgalactosaminyltransferase 1 [Source:HGNC Symbol;Acc:HGNC:20460]
Coordinates
chr9:133154142-133155312:-
Coord C1 exon
chr9:133155178-133155312
Coord A exon
chr9:133154243-133154261
Coord C2 exon
chr9:133154142-133154242
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
ENSG00000148288-16-18,16-17,16-16-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=NA C2=0.018
Domain overlap (PFAM):
C1:
PF034148=Glyco_transf_6=FE(13.4=100)
A:
NA
C2:
PF034148=Glyco_transf_6=PD(0.9=0.6)
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
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