BtaINT0065844 @ bosTau6
Intron Retention
Gene
ENSBTAG00000030319 | GBGT1
Description
globoside alpha-1,3-N-acetylgalactosaminyltransferase 1 [Source:HGNC Symbol;Acc:HGNC:20460]
Coordinates
chr11:103184741-103184907:-
Coord C1 exon
chr11:103184860-103184907
Coord A exon
chr11:103184777-103184859
Coord C2 exon
chr11:103184741-103184776
Length
83 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGC
5' ss Score
5.94
3' ss Seq
TTTGCCCTTCTTGGTTGCAGGTC
3' ss Score
10.07
Exon sequences
Seq C1 exon
CAACATGAAGCTTCAGTACGAGGAGGAGCCGTCCCAGCCCGTGGCACA
Seq A exon
GTAAGCAGCCTGTCCTTTCGCCCTCTGTGGCCCCAGGGCAGGGGGCTGCCATCCCTTTAACCATTTGCCCTTCTTGGTTGCAG
Seq C2 exon
GTCACAGTACCCTCAGCCCAAGCTGCTGGAGCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030319:ENSBTAT00000042813:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.077
Domain overlap (PFAM):
C1:
PF034148=Glyco_transf_6=FE(4.9=100)
A:
NA
C2:
PF034148=Glyco_transf_6=FE(3.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACATGAAGCTTCAGTACGAGGA
R:
GCTTGGGCTGAGGGTACTGT
Band lengths:
71-154
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development