BtaALTA0012549-2/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000030319 | GBGT1
Description
globoside alpha-1,3-N-acetylgalactosaminyltransferase 1 [Source:HGNC Symbol;Acc:HGNC:20460]
Coordinates
chr11:103190714-103192049:-
Coord C1 exon
chr11:103191992-103192049
Coord A exon
chr11:103190814-103190901
Coord C2 exon
chr11:103190714-103190813
Length
88 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TAAGGAGCATCCCTTTGCAGGTA
3' ss Score
4.85
Exon sequences
Seq C1 exon
GATTTCCGGGCCCAGCTGCGCCCCTCCGTTAGTCCCCACCTCGGTCCGGCCTCAAGAG
Seq A exon
GTATTCCCCGACCCCGGAGACCTGGACTCTGAGCCTGACACCCTGAGAGAGGTGGGCCGATTCACCAAGACCCACTCGGTCTCTGCAG
Seq C2 exon
GTGCCCAGGCTCAGAGGCTGCCCCCAGCGATGCACTGCCTGAGACTGGCCCTGGGCCTGGGATTCTGCCTGCTGCTGGGCATCACCCTCTGCTCTCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030319-0-3,0-2,0-1-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF034148=Glyco_transf_6=PU(4.0=54.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
GATTTCCGGGCCCAGCTG
R:
ACAGAGAGCAGAGGGTGATGC
Band lengths:
157-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development