MmuINT0090063 @ mm9
Intron Retention
Gene
ENSMUSG00000023021 | Lass5
Description
LAG1 homolog, ceramide synthase 5 [Source:MGI Symbol;Acc:MGI:1919199]
Coordinates
chr15:99576320-99577598:-
Coord C1 exon
chr15:99577468-99577598
Coord A exon
chr15:99576378-99577467
Coord C2 exon
chr15:99576320-99576377
Length
1090 bp
Sequences
Splice sites
5' ss Seq
CATGTATGT
5' ss Score
5.71
3' ss Seq
TCTATTCTTTGCTCACCCAGGTG
3' ss Score
8.33
Exon sequences
Seq C1 exon
TATCCTGATGAGAAAAGGTTGAAGGGCCTATCAAAGCAACTGGACTGGAGTGTTCGAAAAATCCAATGCTGGTTTCGCCATCGGAGGAATCAGGACAAGCCTCCAACGCTCACGAAATTCTGTGAAAGCAT
Seq A exon
GTATGTCTCAGCGGGGAGCAGAGAAGGAGAAGGGTGGGGTACAGCTGTTTTCTTTTGGGAAATAAGTTTACTGTTGGGACGATGAATGTCCGACTCTAAGGCTCCAGGTTTCAAAAGCCAAGGGGCGGAGGCAGCAGAGAGGAGCTTCCACCCTGGAGCTTCTCAGCCTCCTCAGTGAGCAGCAGCCGCAGGAGGAGAGGACGGCGCTGAGACCTGCCCACGCTTACTCCCTGGTCCTACCTGCCACTAAGGCAACATGATTCCAGTCTGTTCCTCTTTGGAAATAGATTGAGCTAGGTGTAGTGACACATAACCTTTACTCTCCAGCATTTGGAGACTGGCATGTGGATCTCCAATTCAAGGCTAGCCTGGTCTATATATCCAAATTCCAGGCCAGCATGGTTACATAGTGAGGCCTGTCTACCTACCTTTTTTTTTTTTTTTTTTTTTTTTTTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCTTGTCTTGAAAAAAACCAAAACAAAAATCAAAAAAAAAAGGGCTGGTGAGATGGCTCAGTGGTTAAGAGCACCCAACTGCTCTTCCGAAGGTCCGGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCTCGTAACGAGATCTGACTCCCTCTTCTGGAGTGTCTGAAGTCAGCTACAGTGTACTTACATATAATAAATAAATCTAAAAAAACAAAAACAAAAAACCCAAAAGTTAATATTAAAATATATCTGTTTTTTTAAAAAGCCCACCTTGACAGAAATACTACCAGCTTGTTCTATATTTACATTTTTGTGGGAAGTTTTTCCTTGCTTAGGAATATTGTACTTGAAATCAAAGTTTTTAATTCTCTAGAAATGGCTATTAGTCACTGACATGCAATTTGGAAATTGGGTACTGTGAAGGGTCTAATAGGAAAATGTGTTTTTGTGGGACTCCGTGAACAAAGATTCAAAGCTGACGCTGGCTTTGTAAAGATCAGTTTTGTCCCAACTACTACCTTGACTTTCCCTAGTTTGAATTCTCCCCCCTTGGAGTGGACGTTTATGTAACCTCTATTCTTTGCTCACCCAG
Seq C2 exon
GTGGAGATTCACTTATTATTTATGTATCTTCTGCTACGGAATCAGATTTCTCTGGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023021-Lass5:NM_028015:3
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:
PF0004624=Homeobox=PD(66.0=75.0),PF0379811=TRAM_LAG1_CLN8=PU(2.6=11.4)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=PU(18.1=95.0)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGAGAAAAGGTTGAAGGGCC
R:
CGACCAGAGAAATCTGATTCCGT
Band lengths:
184-1274
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: