MmuINT0089676 @ mm10
Intron Retention
Gene
ENSMUSG00000052911 | Lamb2
Description
laminin, beta 2 [Source:MGI Symbol;Acc:MGI:99916]
Coordinates
chr9:108488205-108488874:+
Coord C1 exon
chr9:108488205-108488446
Coord A exon
chr9:108488447-108488525
Coord C2 exon
chr9:108488526-108488874
Length
79 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
ATTTGTTTTGTGCCTGGCAGGTG
3' ss Score
10.6
Exon sequences
Seq C1 exon
GTGCCTATGACAGCATCCGACATGCCCACAGCCAGTCCACAGAGGCAGAGCGCCGTGCCAACGCCTCCACCTTTGCAGTACCCAGCCCTGTGAGCAACTCAGCAGATACCCGGCGTCGGACGGAAGTGCTAATGGGTGCCCAAAAAGAAAACTTCAACCGCCAACATTTGGCCAACCAGCAGGCACTGGGACGGCTCTCTGCACATGCCCACACCCTGAGCCTGACGGGCATAAATGAGTTG
Seq A exon
GTGAGGTGCAAGTATGGAGAGGGACAGGTGGGTGTGGGTGTTCTTCCCACAGGACCTTGATTTGTTTTGTGCCTGGCAG
Seq C2 exon
GTGTGTGGGGCACCAGGGGACGCACCCTGTGCCACCAGCCCTTGTGGGGGTGCCGGATGTCGGGATGAAGATGGGCAGCCCCGTTGTGGTGGCCTCGGTTGCAGTGGGGCAGCAGCCACGGCAGATCTAGCGCTGGGCCGGGCTCGGCACACGCAGGCAGAGCTGCAGCGGGCACTGGTAGAAGGTGGCGGCATCCTCAGCCGGGTGTCTGAGACTCGTCGGCAGGCAGAAGAGGCACAGCAGCGAGCACAGGCAGCCCTGGACAAGGCTAATGCTTCCAGGGGCCAGGTGGAACAGGCCAATCAGGAGCTTCGAGAACTTATCCAGAATGTGAAAGACTTCCTCAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052911:ENSMUST00000065014:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.679 A=NA C2=0.470
Domain overlap (PFAM):
C1:
PF041117=APG6=PD(8.3=16.0)
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:
AGAAAACTTCAACCGCCAACA
R:
GCCCATCTTCATCCCGACATC
Band lengths:
173-252
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