MmuINT0089674 @ mm10
Intron Retention
Gene
ENSMUSG00000052911 | Lamb2
Description
laminin, beta 2 [Source:MGI Symbol;Acc:MGI:99916]
Coordinates
chr9:108487476-108488131:+
Coord C1 exon
chr9:108487476-108487848
Coord A exon
chr9:108487849-108487946
Coord C2 exon
chr9:108487947-108488131
Length
98 bp
Sequences
Splice sites
5' ss Seq
ACGGTACGG
5' ss Score
9.91
3' ss Seq
ATGTCCCCCCATTGATACAGTCA
3' ss Score
4.58
Exon sequences
Seq C1 exon
CCTGTGACTGTGATCCTAGAGGAATAGACAAACCTCAGTGTCATCGTTCCACAGGCCACTGTAGCTGCCGCCCAGGCGTGTCTGGTGTGCGCTGTGACCAGTGTGCTCGTGGCTTCTCAGGGGTTTTTCCTGCTTGTCACCCCTGCCACGCTTGCTTTGGAGACTGGGATCGTGTGGTACAGGACCTGGCTGCTCGGACGCGGCGCCTGGAGCAGTGGGCTCAGGAGTTGCAGCAAACAGGAGTGCTGGGTGCCTTTGAGAGCAGCTTTTTGAACATGCAGGGGAAGCTAGGCATGGTGCAGGCCATTATGAGTGCCCGCAATGCCTCAGCCGCCTCTACGGCGAAGCTTGTAGAGGCCACAGAGGGACTACG
Seq A exon
GTACGGATGGGGCTAAAATAAAAAATATGGTGGGGTGGAGCAAAGGCCCGAGAGATCTGGACTGAGGCTTCTCTAAACATGTCCCCCCATTGATACAG
Seq C2 exon
TCATGAAATCGGGAAGACCACCGAGCGCCTGACTCAGTTAGAAGCAGAGCTAACAGCTGTGCAGGATGAGAACTTCAATGCCAACCATGCACTCAGTGGTCTGGAGAGAGACGGGCTTGCGCTTAATCTCACCCTGAGGCAGCTGGATCAGCATCTGGAGATCCTCAAACATTCAAATTTCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052911:ENSMUST00000065014:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.079
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=40.8),PF041117=APG6=PU(51.6=64.8)
A:
NA
C2:
PF041117=APG6=FE(39.5=100)
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:
CAGGAGTTGCAGCAAACAGGA
R:
CTCGGTGGTCTTCCCGATTTC
Band lengths:
177-275
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