MmuINT0090058 @ mm9
Intron Retention
Gene
ENSMUSG00000008206 | Lass4
Description
LAG1 homolog, ceramide synthase 4 [Source:MGI Symbol;Acc:MGI:1914510]
Coordinates
chr8:4520216-4520682:+
Coord C1 exon
chr8:4520216-4520308
Coord A exon
chr8:4520309-4520553
Coord C2 exon
chr8:4520554-4520682
Length
245 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TGACCCTCTGTCTTCTGCAGGAC
3' ss Score
12.69
Exon sequences
Seq C1 exon
ACCCTGAATTTGTCCCTGTACTGGTGGTACCTCCTGGAGCTGGGCTTCTACCTTTCACTGCTGATCACTTTGCCCTTTGATGTCAAACGCAAG
Seq A exon
GTAAGTTATGAGCCAAGAGTCCAGCTGGAGATGTGGATACCATGATGGGGATACTTTCCAATTTCTGGGCCGGGCCTGAAGTGGGAAGAATTGGCCTCAGCACTGTACCCTGGGGGTGCTCTTGATTCCTCACAGAAGGTCTGGGATCCAGAGGCCTTATGGATCTTCTGAAAAGGCTTGCTTCCAGGCATGTGGCCATCCAGCCACAGAGGCTTGTCCTGGTGGTGACCCTCTGTCTTCTGCAG
Seq C2 exon
GACTTCAAGGAGCAGGTGGTGCACCATTTTGTGGCCGTGGGACTGATAGGCTTCTCCTACAGCGTCAACTTGCTCCGCATTGGCGCTGTGGTACTGTTGTTGCATGACTGCTCCGACTACCTGCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000008206-Lass4:NM_026058:7
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(15.5=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(21.6=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:
CCCTGAATTTGTCCCTGTACTGG
R:
CTCCAGCAGGTAGTCGGAGC
Band lengths:
221-466
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: