RnoEX0086473 @ rn6
Exon Skipping
Gene
ENSRNOG00000048870 | St6galnac4
Description
ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 4 [Source:RGD Symbol;Acc:1303005]
Coordinates
chr3:11607225-11610434:+
Coord C1 exon
chr3:11607225-11607382
Coord A exon
chr3:11607731-11607831
Coord C2 exon
chr3:11610249-11610434
Length
101 bp
Sequences
Splice sites
3' ss Seq
GGATTTGTCTCTTGCCTCAGTTT
3' ss Score
6.14
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
Exon sequences
Seq C1 exon
CCCGGCGGAGCTGCTCCAGCTTCCAGGCTTCAGAAGCTGCGGCCGCAGGACCGCCTCCTACCCGGGGCCGGATTCCGGCCCCTCTGGCCAGGCCCACTGGACATGGAGCTCCGACCAGCGCATCCTGAGCCCCCGGCGCACTCCAACCTGCTCGTTAG
Seq A exon
TTTCCCTCATATTCTGGGACCAGCTTCGAGCCTTTCTCATCCCAAGCTCTGGAGACAGCAGCCTCCAGACTGCTGAGTGCAGAGACAGCATGAAGGCCCGG
Seq C2 exon
GGCCGCCTTCTGCTCCTCATACTATGCTCCCTGACACTCTCCGCTCTCTATGTCTTCCTGTGTTGCTGGGCCTGCCTGCCCCTCTGCCTGGCAACCTGCCTGGACCCCCACCTCCCTGCGCCCCCCAGATCCACTGTGCCAGGGCCCCTGCACTTCAGGGGCTACAGCAGCGTGCCAGATGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048870-'1-4,'1-0,2-4
Average complexity
C1
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(4.9=19.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
CACTGGACATGGAGCTCCGA
R:
CATCTGGCACGCTGCTGTAG
Band lengths:
245-346
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]