MmuINT0090033 @ mm10
Intron Retention
Gene
ENSMUSG00000015714 | Cers2
Description
ceramide synthase 2 [Source:MGI Symbol;Acc:MGI:1924143]
Coordinates
chr3:95320062-95320759:+
Coord C1 exon
chr3:95320062-95320235
Coord A exon
chr3:95320236-95320641
Coord C2 exon
chr3:95320642-95320759
Length
406 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGC
5' ss Score
3.2
3' ss Seq
TTCTCATGTCCCTTACTCAGTTA
3' ss Score
6.26
Exon sequences
Seq C1 exon
GATGCTCCAGACCTTGTATGACTACTTCTGGTGGGAACGACTATGGCTGCCTGTGAACTTAACCTGGGCTGATCTAGAAGACAAAGATGGACGTGTCTATGCCAAAGCCTCAGATCTCTACATCACACTCCCCCTGGCCCTGCTCTTTCTCGTCATTCGATACTTCTTTGAGCT
Seq A exon
GTGAGCATGCCCTCAAACCTTCTCTGGTTGTCAGCCAACCTATAGGGCTTCGTGTTGGTCTTCTGATACTTAGTTCTGGACATTGGTGTTCTGGCCACTCAGGAGCCCATGCTCCCCCTCCCCCAGCGCACCATTGTCTTCCTGAGGCTGAGGACTCAGCATCCCCAGCCTTGTCCTTCAATGGTTTTTTGTTTTCATCCTGCACCCGCCTCCTCGCCTGGTCAATAGTGAACATAGGCAGCTTTGTCAGCTGTGGGCAGCCCAGGAGGCCAGAAGAAAGGTGGATGCCAGGGAATTTGGGAAACTGAGGCCCAGAATTAAGTCTTGCAGTACTTTCTCTGTCCCATTTAGGGGTTAGGAGTGCTCCAAGGGAGCCAGACACCTCTTTCTCATGTCCCTTACTCAG
Seq C2 exon
TTATGTGGCAACACCCCTGGCTGCCCTCCTGAATGTTAAGGAGAAAACCCGACTGCGGGCACCTCCCAATGCCACCTTGGAACATTTCTACCAGACCAGCGGCAAGCAGCCCAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015714:ENSMUST00000015858:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=PU(46.6=67.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTCCAGACCTTGTATGACT
R:
CTTGCCGCTGGTCTGGTAGAA
Band lengths:
278-684
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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