MmuINT0089570 @ mm9
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:179928109-179928598:-
Coord C1 exon
chr2:179928397-179928598
Coord A exon
chr2:179928236-179928396
Coord C2 exon
chr2:179928109-179928235
Length
161 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CATCAGAGACTCTTCAACAGGGC
3' ss Score
0.56
Exon sequences
Seq C1 exon
TGCTGCCTGTCTAGCCTCCCGATTCCCGAAGCCACCGCAGCCCATCATCCTTAAGGACTGCCAGGTCTTGCCGCTGCCTCCCGACCTGCCTCTGACTCAGTCTCAGGAGCTCTCACCAGGTGCACCCCCCGAGGGACCACAGCCTCGGCCGCCAACTGCGGTGGATCCTAATGCAGAACCCACCTTGCTGCGCCACCCCCAG
Seq A exon
GTGAGGGCTCAGGGTGGACGGAAGCCTCTCCAGGGATGGGTGGGGGTGAGGCAGGGCAGGGCTCTGGGTCCCTGTCCTCTGCCACCCCGTGACAGAGGCTGCAGACAGAGGTGGGACCAGCTTTTCCTTACTCTGGCCACTCATCAGAGACTCTTCAACAG
Seq C2 exon
GGCACGGTGGTCTTCACCACCCAGGTGCCCACCCTGGGCCGCTATGCCTTTCTGCTGCACGGCTACCAGCCGGTCCACCCCTCCTTCCCTGTGGAGGTACTCATTAATGGTGGCCGCATCTGGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647-Lama5:NM_001081171:30
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.471 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACCTGCCTCTGACTCAGTCTC
R:
CCAGATGCGGCCACCATTAAT
Band lengths:
242-403
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: