MmuINT0090066 @ mm9
Intron Retention
Gene
ENSMUSG00000023021 | Lass5
Description
LAG1 homolog, ceramide synthase 5 [Source:MGI Symbol;Acc:MGI:1919199]
Coordinates
chr15:99570033-99571467:-
Coord C1 exon
chr15:99571375-99571467
Coord A exon
chr15:99570162-99571374
Coord C2 exon
chr15:99570033-99570161
Length
1213 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTCCATCTCTCCATCCCTAGGAC
3' ss Score
11.17
Exon sequences
Seq C1 exon
CCACTCTCGAGAGAGCTGTATTACTATTACATCACACAACTGGCTTTCTACTGGTCTCTTATGTTTTCTCAGTTTATAGATGTTAAAAGAAAG
Seq A exon
GTGAGTGCCTCAACCCCTCAGCTGCTCTCGCACAGCTCTGCCGCCACCATCACCCTCGTGGGTGTGATAGCACGGCCATCAGCTTTCTACAACTAGTGATGGAGCATGTTTAAGGTGGTCAGGGCAGCGGGAGAGCGCCCAGGCAGTACATGCGCATGCTCTGTCCTCCTTTGCTCTAGTGTTCTTTTATACCAGAGCTCAGGGAATCAGCGAGAACTTGGGGTACCAAGGCCCAATTCAGGAAAAACCTTGGTTTTAGAAAAAAAATCAAGATTCAAACGAGTGAGCTGACTTTCCACAGTGACAGATCGGTATGACTTACATTTTATAAAACTACATCTGACAGAAACAATTTAAAGGTGAAACCTTGGTTTTGGCTCCCAGTTTCAGAGAGTTTCCTTCCATCCTGCAGGGAAGGTGTGGCAGTTGCTCAGTTCATGGCAGTAGGTGTAGTGGAAGCCAACTACGTCACTGAGCCAGGAGGCAGGGAATGTGCCCGGAGAGCCGTCAGCCTGGCATAGCCTTTGGATGGCAGTCCCCTCTTACCTCCTGCCAGCTGGGCCCTGCCATTCCTAACAGTTTCACAGCCTCCCAAGATACTGCTGCCAGCTGGGCAAAGGCGTCCAAAGCATGAGCCTGTAGACATTTCACATTTATACCAAAGCATCTAATAACTATTGAAGAGTTCCTCAGGGTTAACTTGGCCTGCAAACCCAAGAAAGAAAGACTTAATTAAACCTGAAAGCCTAAAATAGTTGCAATAAGATGAATTCTTGCTGGGTAGAGGCACATGCCTTTAATCCCAGCCAGCATTCAGGAGGCAGAGACAGGTGAATTTCTGAGTTCAAGACCCACCTACAGAGTGGGTTCCAGGATATACAGAGAAACCCTGTCTTGAAAAACAGAACAGCAACCAAACAGATGAATTGCTCAGCTAATAGGTAGTTCTCTGGCAGTTTTAAGATTAATTTTAGTTGTGTGTGTGTGTCTGTCTGTCTGTCTGTCCGTCCGTCCGTCCATGCGTTGAGTTCAGGTGCCCACAGAGGCCAGAAGAGGGTGCCTTGGAGCTAGAGTTAACAAATAGTTGAGAGCCACCTGGCAGAGGTGCTCTTAAGCACTGGGACACAGGTTAAGACCCTGGGGATGGCAGCACACTGGTCGGCTTGCACGGCCTGCCCTGTGCTGCCTGCCATCTCCATCTCTCCATCCCTAG
Seq C2 exon
GACTTCCTGATGATGTTTATTCATCATATGATTGGCATTATGCTCACCACTTTCTCCTACGTCAACAACATGGTGCGAGTGGGAGCACTCATCTTCTGTCTGCATGACTTCGCAGACCCCTTACTGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023021-Lass5:NM_028015:6
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(39.5=100),PF0379811=TRAM_LAG1_CLN8=PU(0.1=0.0)
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:
TCGAGAGAGCTGTATTACTATTACAT
R:
TTCCAGTAAGGGGTCTGCGAA
Band lengths:
216-1429
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: