MmuINT0090034 @ mm9
Intron Retention
Gene
ENSMUSG00000015714 | Lass2
Description
LAG1 homolog, ceramide synthase 2 [Source:MGI Symbol;Acc:MGI:1924143]
Coordinates
chr3:95124564-95124982:+
Coord C1 exon
chr3:95124564-95124681
Coord A exon
chr3:95124682-95124863
Coord C2 exon
chr3:95124864-95124982
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-Lass2:NM_029789:3
Average complexity
IR-C
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:
PF067897=UPF0258=PU(39.8=97.5),PF0004624=Homeobox=PU(46.6=67.5)
A:
NA
C2:
PF067897=UPF0258=FE(39.8=100),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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: