MmuINT0067910 @ mm9
Intron Retention
Gene
ENSMUSG00000026829 | Gbgt1
Description
globoside alpha-1,3-N-acetylgalactosaminyltransferase 1 [Source:MGI Symbol;Acc:MGI:2449143]
Coordinates
chr2:28357587-28357752:+
Coord C1 exon
chr2:28357587-28357637
Coord A exon
chr2:28357638-28357716
Coord C2 exon
chr2:28357717-28357752
Length
79 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
CTGGCTCTTCTTGTTTACAGGTT
3' ss Score
9.82
Exon sequences
Seq C1 exon
CAACATGAAGCTGCCCTTCAGGAAGGAGAAACCGTTGCAGCCTGTGACACA
Seq A exon
GTAAGTAGACCCTTTCTCCTTGGATTCTGGCCCTGGGCATGGGAGCTGCCTCCCTCACACTGGCTCTTCTTGTTTACAG
Seq C2 exon
GTTACAGTACCCTCAGCCTAAGCTGCTGGAACACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026829-Gbgt1:NM_139197:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF034148=Glyco_transf_6=FE(5.0=100)
A:
NA
C2:
PF034148=Glyco_transf_6=FE(3.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAGGAAGGAGAAACCGTTGC
R:
CCGTGTTCCAGCAGCTTAGG
Band lengths:
71-150
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: