MmuINT0089576 @ mm9
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:179925610-179926077:-
Coord C1 exon
chr2:179925933-179926077
Coord A exon
chr2:179925751-179925932
Coord C2 exon
chr2:179925610-179925750
Length
182 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGATTGTTCTCTGCCCATAGGAG
3' ss Score
10.41
Exon sequences
Seq C1 exon
ATGCAGACCCAATGTAGCTGGACGTCGCTGTGATACCTGTGCCCCGGGCTTCTATGGCTATCCTAGCTGTCGCCCCTGTGACTGCCATGAGGCAGGCACCATGGCTAGCGTGTGTGACCCCCTCACAGGCCAATGCCATTGCAAG
Seq A exon
GTGAGCAGGGGCTTGTATCCCAGGCTCCTTACTACGTATCTGCTTCAGTTGAGCCATGGTCCTCCTCAGCAGCCTTCCTGGGCAGATGGGGCTTTCTGGAAGCTTTGGGGGACAAGGACAACTGGTCTATTGTCTGGCTCTCAGCACATAGCCAACTGGCCTTGATTGTTCTCTGCCCATAG
Seq C2 exon
GAGAACGTGCAGGGCTCAAGATGTGACCAGTGTCGCGTGGGGACCTTCTCCTTGGATGCTGCTAACCCCAAGGGCTGTACCCGCTGCTTCTGTTTCGGGGCCACAGAGCGCTGTGGGAACTCTAACCTCGCCCGCCATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647-Lama5:NM_001081171:36
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:
PF0005319=Laminin_EGF=PD(51.0=51.0),PF0005319=Laminin_EGF=PU(44.9=44.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(51.0=53.2)
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:
TAGCTGGACGTCGCTGTGATA
R:
GTTAGAGTTCCCACAGCGCTC
Band lengths:
257-439
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: