MmuINT0089657 @ mm10
Intron Retention
Gene
ENSMUSG00000052911 | Lamb2
Description
laminin, beta 2 [Source:MGI Symbol;Acc:MGI:99916]
Coordinates
chr9:108479857-108480143:+
Coord C1 exon
chr9:108479857-108479974
Coord A exon
chr9:108479975-108480057
Coord C2 exon
chr9:108480058-108480143
Length
83 bp
Sequences
Splice sites
5' ss Seq
CGGGTCAGC
5' ss Score
4.14
3' ss Seq
TCTATTTTACTTTTCTTCAGGAT
3' ss Score
10.04
Exon sequences
Seq C1 exon
TTTCCAACTTTACTCAAAGTCGTCAGAGTCTCTCAGATTGTGGAGGAGTGACTGCTAGGTCCGACCCTGGACAGATTGAGGGCCTGGAGGGACACCAGCCCAGTACCCACACGGTCGG
Seq A exon
GTCAGCATCAGCCCCAAGGGAGGTGGTGGGCTTTCGTCTGTGGACTCTTTATCTCTCTTTATCTCTATTTTACTTTTCTTCAG
Seq C2 exon
GATGGAGTGGGCCTCAGGAGAACCAGGGAGGGGCAGGCAGGGACAGCCTTTGCCATGGGAACTTCGCTTGGGCCTACTTCTAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052911:ENSMUST00000065014:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.824 A=NA C2=0.504
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGATTGTGGAGGAGTGACTGC
R:
CACTTAGAAGTAGGCCCAAGCG
Band lengths:
171-254
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