MmuINT0089562 @ mm9
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:179930260-179930724:-
Coord C1 exon
chr2:179930586-179930724
Coord A exon
chr2:179930403-179930585
Coord C2 exon
chr2:179930260-179930402
Length
183 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
ACCTTCTCCACCCACCCCAGGCA
3' ss Score
7.4
Exon sequences
Seq C1 exon
CCCAGGATTGTGGCCAGGCTGAACGTGACCTCCCCTGACCTCTTTCGGCTGGTTTTCCGATATGTCAACCGTGGATCAACCAGCGTGAATGGGCAGATCTCTGTTCGTGAAGAGGGCAAGCTTTCCAGCTGTACCAACT
Seq A exon
GTGAGTGGGGTCTGCTCACTGCTTCCTTTCCTACCCCATACCACCCAAGCCATGCGGGTAGTGGACCCGGCCTGTATCACCTTCATCCTGGCGCCTTGGGAGTTGTACGTTACATGGGGGAAGTACAGACTTGGGTGGTCTGTGGATTCAGCCTGATCATCTTACCTTCTCCACCCACCCCAG
Seq C2 exon
GCACAGAGCAGAGCCAGCCAGTGGCTTTCCCACCCAGCACTGAGCCTGCCTTTGTCACTGTGCCCCAGAGGGGCTTTGGGGAACCCTTTGTGCTGAACCCCGGCATCTGGGCCTTGCTGGTCGAGGCTGAAGGTGTACTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647-Lama5:NM_001081171:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.042
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:
GTGACCTCCCCTGACCTCTTT
R:
TACACCTTCAGCCTCGACCAG
Band lengths:
252-435
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: