MmuINT0089658 @ mm10
Intron Retention
Gene
ENSMUSG00000052911 | Lamb2
Description
laminin, beta 2 [Source:MGI Symbol;Acc:MGI:99916]
Coordinates
chr9:108482508-108483060:+
Coord C1 exon
chr9:108482508-108482696
Coord A exon
chr9:108482697-108482880
Coord C2 exon
chr9:108482881-108483060
Length
184 bp
Sequences
Splice sites
5' ss Seq
GTCGTAAGG
5' ss Score
5
3' ss Seq
TATACTCTCCTTTTTCTCAGCTT
3' ss Score
7.85
Exon sequences
Seq C1 exon
AGTGTGAGTGCAACGGGCATACTCATAGCTGCCACTTTGACATGGCTGTCTACCTGGCATCTGGAAATGTAAGTGGAGGCGTATGCGATGGGTGTCAGCACAACACAGCTGGGCGCCATTGTGAGTTCTGCCGGCCCTTCTTCTACCGTGACCCCACCAAGGACATGCGGGACCCAGCTGTGTGCCGTC
Seq A exon
GTAAGGCTGGGATTGGGCATGAGGGAGGGAAAGCTGAGCCTGCGTCAGGAACTAGGAAGCTGGATTATAGTACCGGTTCCCAGGATTGGTGTGGTCAGGGCTTGGGGTAGAACCAGAACAGGGAAAGGGGAAGGCTCAGGATGGTCACTGCGATGGGGTGACTTTATACTCTCCTTTTTCTCAG
Seq C2 exon
CTTGTGACTGTGACCCTATGGGTTCTCAAGATGGTGGTCGCTGTGATTCTCATGATGACCCTGTGCTAGGACTGGTCTCAGGCCAGTGTCGCTGCAAAGAACACGTGGTTGGCACTCGCTGCCAGCAATGCCGTGATGGCTTCTTTGGACTTAGTGCCAGTGACCCTCGAGGGTGCCAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052911:ENSMUST00000065014:10
Average complexity
IR
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=WD(100=95.3)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.1)
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:
GGGCATACTCATAGCTGCCAC
R:
CCTGAGACCAGTCCTAGCACA
Band lengths:
257-441
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types