MmuINT0089673 @ mm10
Intron Retention
Gene
ENSMUSG00000052911 | Lamb2
Description
laminin, beta 2 [Source:MGI Symbol;Acc:MGI:99916]
Coordinates
chr9:108487293-108487848:+
Coord C1 exon
chr9:108487293-108487389
Coord A exon
chr9:108487390-108487475
Coord C2 exon
chr9:108487476-108487848
Length
86 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGA
5' ss Score
5.46
3' ss Seq
TGCTTTGGCTTTTCTTGCAGCCT
3' ss Score
9.29
Exon sequences
Seq C1 exon
TTCACAGGGCAGTGTCACTGTCATGCTGGCTTTGGTGGGAGGACTTGTTCTGAGTGCCAAGAGCTCTACTGGGGAGACCCTGGTCTGCAGTGCCGTG
Seq A exon
GTGAGAAATCTGGACTGACAGGGTAGATAAAGACAATCTCGTCTGCATCACCAGGGCCTAATACTGTGCTTTGGCTTTTCTTGCAG
Seq C2 exon
CCTGTGACTGTGATCCTAGAGGAATAGACAAACCTCAGTGTCATCGTTCCACAGGCCACTGTAGCTGCCGCCCAGGCGTGTCTGGTGTGCGCTGTGACCAGTGTGCTCGTGGCTTCTCAGGGGTTTTTCCTGCTTGTCACCCCTGCCACGCTTGCTTTGGAGACTGGGATCGTGTGGTACAGGACCTGGCTGCTCGGACGCGGCGCCTGGAGCAGTGGGCTCAGGAGTTGCAGCAAACAGGAGTGCTGGGTGCCTTTGAGAGCAGCTTTTTGAACATGCAGGGGAAGCTAGGCATGGTGCAGGCCATTATGAGTGCCCGCAATGCCTCAGCCGCCTCTACGGCGAAGCTTGTAGAGGCCACAGAGGGACTACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052911:ENSMUST00000065014:24
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=0.024
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(66.0=93.9)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=40.8),PF041117=APG6=PU(51.6=64.8)
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:
AGTGCCAAGAGCTCTACTGGG
R:
AAAAACCCCTGAGAAGCCACG
Band lengths:
173-259
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