MmuINT0090037 @ mm9
Intron Retention
Gene
ENSMUSG00000015714 | Lass2
Description
LAG1 homolog, ceramide synthase 2 [Source:MGI Symbol;Acc:MGI:1924143]
Coordinates
chr3:95125258-95125589:+
Coord C1 exon
chr3:95125258-95125308
Coord A exon
chr3:95125309-95125496
Coord C2 exon
chr3:95125497-95125589
Length
188 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
ACCCCTAATTTCTCTCCCAGAGC
3' ss Score
9.21
Exon sequences
Seq C1 exon
AAACCCTGGTTCTATGACTTAAGGAAAGTTTGGGAGGGATATCCCATACAG
Seq A exon
GTATGAGAAGACCCCTTATGTAATAGTGTTCTATAGCACACAATACCTTATGAAGGAAGGGTTTCATGAATACATGGCAGAAGACAATCATGAAAGACTTATCTTGAGGGGCTAGAAGTAATGAGTTTGGAGGTGTGCCCCTTAGGTCTGAGTGTCCTGGGATCCCTCACCCCTAATTTCTCTCCCAG
Seq C2 exon
AGCATCATCCCTTCTCAGTATTGGTACTACATGATTGAACTTTCCTTCTACTGGTCCCTGCTCTTCAGCATTGCCTCTGATGTCAAGCGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015714-Lass2:NM_029789:6
Average complexity
IR-S
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(18.0=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(15.5=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:
ACCCTGGTTCTATGACTTAAGGA
R:
TTCGCTTGACATCAGAGGCAA
Band lengths:
140-328
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: