MmuINT0089580 @ mm9
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:179941638-179942010:-
Coord C1 exon
chr2:179941892-179942010
Coord A exon
chr2:179941809-179941891
Coord C2 exon
chr2:179941638-179941808
Length
83 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
ATCTACCACACCTTCTGCAGATT
3' ss Score
6.75
Exon sequences
Seq C1 exon
CCTCCAAGAGGGATTGTTTGGAGCGGTTTGGACCTCGGACTCTAGAGCGCATCACGCAGGACGACGACGTCATCTGCACCACAGAATACTCGCGAATAGTGCCTTTGGAGAATGGCGAG
Seq A exon
GTGGGTTGCACAGCTGTGCTTGTCTGGGGGTGGTGGGTCCCTGTTGTTTCTGAGCCTGGCCTCATCTACCACACCTTCTGCAG
Seq C2 exon
ATTGTGGTGTCCTTGGTAAATGGGCGCCCTGGGGCCTTGAACTTCTCCTACTCACCGTTACTTCGAGACTTCACCAAAGCCACCAACATCCGCTTGCGGTTTCTGCGAACCAACACGCTACTGGGCCACCTCATGGGCAAGGCGCTGCGGGACCCCACAGTCACCCGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647-Lama5:NM_001081171:4
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:
PF0005512=Laminin_N=FE(15.4=100)
A:
NA
C2:
PF0005512=Laminin_N=FE(22.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGACCTCGGACTCTAGAGC
R:
GGATGTTGGTGGCTTTGGTGA
Band lengths:
183-266
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: