MmuINT0089660 @ mm9
Intron Retention
Gene
ENSMUSG00000052911 | Lamb2
Description
laminin, beta 2 [Source:MGI Symbol;Acc:MGI:99916]
Coordinates
chr9:108385502-108385940:+
Coord C1 exon
chr9:108385502-108385614
Coord A exon
chr9:108385615-108385860
Coord C2 exon
chr9:108385861-108385940
Length
246 bp
Sequences
Splice sites
5' ss Seq
CTGGTACGA
5' ss Score
7.84
3' ss Seq
AGCAATTCCTTTTTCCCTAGCCT
3' ss Score
5.32
Exon sequences
Seq C1 exon
GTTGCCAGTGTAATTCACGGGGCACAGTGCCTGGGAGCTCCCCTTGTGACTCCAGTAGTGGAACCTGTTTCTGCAAGCGTCTGGTGACCGGACATGGCTGTGACCGCTGTCTG
Seq A exon
GTACGACTGAGGGATCTGGGGTCCTGGGATCCTGGGTTTGTTCTCAAAGCACATGGGCAAAGTCCAGTGGGTGGACACTGAGAGCCTAGAGTCTAGTCCTGGAAGACAAGCGTCTGGTCTGGCAGGTCAAGGGTCTAGACCAGTGGTCTGGGGGCTTTGCATTCACCAGTCAGTGGTAAATGCTGGACTCCCTGGTGGGTGGCAAGGAGGTCTGTTCCTGGCTTCCAGCAATTCCTTTTTCCCTAG
Seq C2 exon
CCTGGCCACTGGGGCCTGAGCCATGACCTGCTGGGCTGCCGTCCCTGTGACTGTGATGTGGGCGGTGCCTTGGATCCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052911-Lamb2:NM_008483:12
Average complexity
IR-S
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=PU(72.0=94.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(24.0=44.4),PF0005319=Laminin_EGF=PU(24.4=40.7)
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:
GTGTAATTCACGGGGCACAGT
R:
TGAGGATCCAAGGCACCGC
Band lengths:
186-432
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: