MmuINT0089484 @ mm9
Intron Retention
Gene
ENSMUSG00000024421 | Lama3
Description
laminin, alpha 3 [Source:MGI Symbol;Acc:MGI:99909]
Coordinates
chr18:12690344-12690722:+
Coord C1 exon
chr18:12690344-12690457
Coord A exon
chr18:12690458-12690542
Coord C2 exon
chr18:12690543-12690722
Length
85 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACC
5' ss Score
8.55
3' ss Seq
CCTACTTGTGTGTGCACTAGGTG
3' ss Score
8.4
Exon sequences
Seq C1 exon
TCAGTCCAGCTCTCAACAGCCTACAACAAACCCTGAAGACTGTATCAGTTCAGAAGGACCTGCTAGATGCCAACCTCACTGTTGCCCGTGATGATCTTCATGGGATACAGAGAG
Seq A exon
GTAACCATCACCTTGTACCAGTGGTTATCATTTCTTGGGAAGAATGGGTCAGCTCTTTACGCCCCCCTACTTGTGTGTGCACTAG
Seq C2 exon
GTGATATCGACAGTGTGGTGATCGGTGCAAAGAGCATGGTCAGGGAAGCCAACGGAATAACAAGCGAGGTCCTGGACGGGCTCAACCCCATCCAGACAGATTTGGGAAGGATTAAGGACAGCTATGAGAGCGCACGGCGTGAAGACTTCAGCAAGGCTCTGGTCGATGCCAATAACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024421-Lama3:NM_010680:53
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.016
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF060097=Laminin_II=PU(39.5=83.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGCTCTCAACAGCCTACA
R:
TCGCTTGTTATTCCGTTGGCT
Band lengths:
177-262
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: