MmuINT0089556 @ mm9
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:179931931-179932183:-
Coord C1 exon
chr2:179932078-179932183
Coord A exon
chr2:179931981-179932077
Coord C2 exon
chr2:179931931-179931980
Length
97 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
TCCTGCTCTGCTCTCCTCAGGCT
3' ss Score
9.47
Exon sequences
Seq C1 exon
ACACAGGCTCCCTGTATGTGCCGGGCTCACGTGGAAGGGCCAAGCTGTGATCGCTGTAAACCTGGGTACTGGGGGCTGAGCGCCAGCAACCCTGAAGGCTGCACAC
Seq A exon
GTGAGTTTGTCCTAGAGGGATGGTTAGGGGTTTGAGGGGTAGACCTGTCTCCCCATCCTGTCCCCCAGGGCTTTCAATCCTGCTCTGCTCTCCTCAG
Seq C2 exon
GCTGCAGCTGTGACCCACGAGGCACCCTGGGTGGAGTTACTGAGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647-Lama5:NM_001081171:18
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:
NO
A:
NA
C2:
PF0005319=Laminin_EGF=PU(30.0=88.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCTCCCTGTATGTGCCG
R:
CTGGCACTCAGTAACTCCACC
Band lengths:
152-249
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: