MmuINT1032280 @ mm10
Intron Retention
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
chr2:32587095-32587681:+
Coord C1 exon
chr2:32587095-32587227
Coord A exon
chr2:32587228-32587580
Coord C2 exon
chr2:32587581-32587681
Length
353 bp
Sequences
Splice sites
5' ss Seq
TCGGTTAGC
5' ss Score
1.57
3' ss Seq
TGTCTCTTCCCTTGCCTCAGTTT
3' ss Score
8.03
Exon sequences
Seq C1 exon
GGCTTCAGAAGCTGCGGCCGCAGCACCGCCTCCTACCCGGGGCCCGGTTCCAGCCCCTCTGGCCCGGCGCACTGGACATGGAGCTCCGAGCAGCGCATCCTGAGCCCCCAGCGCACTCCAATCCGCTCGTTCG
Seq A exon
GTTAGCGCCCAGCTTGGGGAGGGGACGGTGGAAGCTAGCCGGGTGAAAACCTCACATCCTGCCCGCCCCAGGCCTCTCCATCACCCCGCGGTAGAGAGTTGGGATGGATGGGAACGATGTTCTCCTGGCTCCTGGCTTTCTTTGCCTGCCTCCGACCGAATGGATGACCTTGAGCCGAGAGCGTCTCCTCTTTGCCTCTCCTTCCCCATCTGCACAATGGGAATTGGTTTGGCAAGGTCTCTGAACTCACGGCCTTTAGAATGGGACACGTTGTCACATGCTTGGAGACTTAAAGGCTTTTGGTTCCTGGGCCCGTTTTTCTTGATCTGGATTTGTCTCTTCCCTTGCCTCAG
Seq C2 exon
TTTCTCTCATATCCTGGGACCAGCTTCCAGCCTTTCTCATCCCAAGCACTGGAGACAGCAGCCTCCAGACTGCTAAGAGCAGAGACAGCATGAAGGCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079442:ENSMUST00000102818:1
Average complexity
IR
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:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion 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:
CTTCAGAAGCTGCGGCCG
R:
GGGCCTTCATGCTGTCTCTG
Band lengths:
230-583
Functional annotations
There are 0 annotated functions for this event
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