MmuINT0090039 @ mm10
Intron Retention
Gene
ENSMUSG00000015714 | Cers2
Description
ceramide synthase 2 [Source:MGI Symbol;Acc:MGI:1924143]
Coordinates
chr3:95321831-95322233:+
Coord C1 exon
chr3:95321831-95321959
Coord A exon
chr3:95321960-95322126
Coord C2 exon
chr3:95322127-95322233
Length
167 bp
Sequences
Splice sites
5' ss Seq
GAGGTTAGG
5' ss Score
4.36
3' ss Seq
GTTTTTATTTATTTTTATAGTCT
3' ss Score
7.14
Exon sequences
Seq C1 exon
GATTTTAAGGAACAGATCATCCACCATGTGGCCACTATCATTCTCCTCTGCTTCTCCTGGTTTGCCAATTACGTCCGGGCAGGGACCCTCATCATGGCTCTGCATGACGCTTCTGACTACCTGCTGGAG
Seq A exon
GTTAGGCTTCCTCACAGTAGAGGCCCCAGTGCAGGTTCCCCTTGTCCCTCACCTTCCAGGGGATGGGAGAGAGGGAATTGTCAGTGCAGCTAGCCACATGCAAATACTACTGTCTATGGGAGTCAAGAGCCAGTGATAATAGATGGTGTTTTTATTTATTTTTATAG
Seq C2 exon
TCTGCCAAGATGTTTAACTACGCGGGATGGAAGAACACCTGCAACAACCTCTTCATTGTGTTCGCCATCGTTTTCATCATCACTCGGCTGGTTATCATGCCTTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015714:ENSMUST00000015858:8
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=0.000
Domain overlap (PFAM):
C1:
PF0379811=TRAM_LAG1_CLN8=PD(16.9=88.2)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(18.0=100)
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:
ATTTTAAGGAACAGATCATCCACCA
R:
AGAAAGGCATGATAACCAGCCG
Band lengths:
234-401
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