MmuINT0089661 @ mm10
Intron Retention
Gene
ENSMUSG00000052911 | Lamb2
Description
laminin, beta 2 [Source:MGI Symbol;Acc:MGI:99916]
Coordinates
chr9:108483530-108483820:+
Coord C1 exon
chr9:108483530-108483609
Coord A exon
chr9:108483610-108483687
Coord C2 exon
chr9:108483688-108483820
Length
78 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
GTAACCACAGCATTCCTCAGGTG
3' ss Score
-0.84
Exon sequences
Seq C1 exon
CCTGGCCACTGGGGCCTGAGCCATGACCTGCTGGGCTGCCGTCCCTGTGACTGTGATGTGGGCGGTGCCTTGGATCCTCA
Seq A exon
GTGAGTATTGTTACAGGTGCTTGGGAGGTGGATGGGAAGGCGAAGCATGGGTCCTTTGGTAACCACAGCATTCCTCAG
Seq C2 exon
GTGTGATGAGGCCACCGGTCAGTGCCGCTGCCGCCAACACATGATTGGGCGGCGCTGCGAACAAGTGCAGCCTGGCTACTTCCGGCCTTTTCTGGACCATTTAACCTGGGAGGCTGAGGCTGCCCAAGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052911:ENSMUST00000065014:13
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=PD(24.0=44.4),PF0005319=Laminin_EGF=PU(24.4=40.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(73.3=73.3)
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:
CTGAGCCATGACCTGCTGG
R:
AAATGGTCCAGAAAAGGCCGG
Band lengths:
167-245
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