MmuINT0090034 @ mm10
Intron Retention
Gene
ENSMUSG00000015714 | Cers2
Description
ceramide synthase 2 [Source:MGI Symbol;Acc:MGI:1924143]
Coordinates
chr3:95320642-95321060:+
Coord C1 exon
chr3:95320642-95320759
Coord A exon
chr3:95320760-95320941
Coord C2 exon
chr3:95320942-95321060
Length
182 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
ACTGGTCTTACTATGCCTAGGTG
3' ss Score
6.18
Exon sequences
Seq C1 exon
TTATGTGGCAACACCCCTGGCTGCCCTCCTGAATGTTAAGGAGAAAACCCGACTGCGGGCACCTCCCAATGCCACCTTGGAACATTTCTACCAGACCAGCGGCAAGCAGCCCAAGCAG
Seq A exon
GTATGAGAGGCAGATGATTCTGGCAGTTGCTGAGTTTGGGTGGGTCAGAGTTTGAATGCTTGCTTTGGAAGGTGAGGACTTGGTAGAGGGTGGGCATGATTCAGGTTATTATGGGGAGAGGTTAAGTAGAATGGGGGCACTGCTGATCTGAAGGCTGAATATACTGGTCTTACTATGCCTAG
Seq C2 exon
GTGGAGGTAGACCTTTTGTCACGGCAGAGTGGGCTCTCTGGACGCCAGGTAGAACGCTGGTTCCGCCGCCGCCGCAACCAGGACAGGCCCAGTCTTCTCAAAAAGTTCCGAGAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015714:ENSMUST00000015858:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.005
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(46.6=67.5)
A:
NA
C2:
PF0004624=Homeobox=PD(50.0=72.5),PF0379811=TRAM_LAG1_CLN8=PU(2.6=12.5)
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:
TGGCAACACCCCTGGCTG
R:
TGGCTTCTCGGAACTTTTTGAGA
Band lengths:
231-413
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