MmuINT0090067 @ mm10
Intron Retention
Gene
ENSMUSG00000023021 | Cers5
Description
ceramide synthase 5 [Source:MGI Symbol;Acc:MGI:1919199]
Coordinates
chr15:99739406-99739730:-
Coord C1 exon
chr15:99739602-99739730
Coord A exon
chr15:99739513-99739601
Coord C2 exon
chr15:99739406-99739512
Length
89 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGA
5' ss Score
6.42
3' ss Seq
TTTTTTTATCTTTCACCTAGGCT
3' ss Score
9.32
Exon sequences
Seq C1 exon
GACTTCCTGATGATGTTTATTCATCATATGATTGGCATTATGCTCACCACTTTCTCCTACGTCAACAACATGGTGCGAGTGGGAGCACTCATCTTCTGTCTGCATGACTTCGCAGACCCCTTACTGGAA
Seq A exon
GTAAGAGCCCATCCTGGCATTCATGAATCCTTTCTCCCTTTTTTGATATGTGACTTTCTCCCCAACTCATTTTTTTATCTTTCACCTAG
Seq C2 exon
GCTGCCAAGATGGCCAATTATGCCAGACGTGAGCGGCTCTGTACCACCCTTTTTGTGATCTTTGGCGCAGCTTTTATAGTTTCTCGTCTAGCAATCTTCCCATTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023021:ENSMUST00000023762:7
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=FE(21.6=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=PD(6.4=13.5),PF0379811=TRAM_LAG1_CLN8=FE(42.4=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:
TGATTGGCATTATGCTCACCACT
R:
GCTGCGCCAAAGATCACAAAA
Band lengths:
172-261
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