MmuEX6100575 @ mm10
Exon Skipping
Gene
ENSMUSG00000079442 | St6galnac4
Description
ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 4 [Source:MGI Symbol;Acc:MGI:1341894]
Coordinates
chr2:32587095-32589630:+
Coord C1 exon
chr2:32587095-32587227
Coord A exon
chr2:32587581-32587681
Coord C2 exon
chr2:32589445-32589630
Length
101 bp
Sequences
Splice sites
3' ss Seq
TGTCTCTTCCCTTGCCTCAGTTT
3' ss Score
8.03
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
Exon sequences
Seq C1 exon
GGCTTCAGAAGCTGCGGCCGCAGCACCGCCTCCTACCCGGGGCCCGGTTCCAGCCCCTCTGGCCCGGCGCACTGGACATGGAGCTCCGAGCAGCGCATCCTGAGCCCCCAGCGCACTCCAATCCGCTCGTTCG
Seq A exon
TTTCTCTCATATCCTGGGACCAGCTTCCAGCCTTTCTCATCCCAAGCACTGGAGACAGCAGCCTCCAGACTGCTAAGAGCAGAGACAGCATGAAGGCCCCG
Seq C2 exon
GGCCGCCTTCTGCTCCTCACACTGTGCATCTTGACATTCTCTGCTGTCTGTGTCTTCCTGTGCTGCTGGGCCTGCCTGCCGCTCTGCCTGGCAACCTGCCTGGACCGCCACCTCCCTGCGGCCCCCAGATCCACTGTGCCAGGGCCCCTGCACTTCAGTGGCTACAGCAGCGTGCCAGACGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079442-'0-4,'0-0,1-4
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0077713=Glyco_transf_29=PU(8.0=32.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
ACTGGACATGGAGCTCCGAG
R:
GTCTGGCACGCTGCTGTAG
Band lengths:
243-344
Functional annotations
There are 1 annotated functions for this event
PMID: 32249828
[CRISPR screen]. This alternative exon is implicated in cell fitness by a CRISPR-based exon deletion phenotypic screen in RPE-1 cells.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types