MmuINT0089577 @ mm10
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:180190640-180191045:-
Coord C1 exon
chr2:180190905-180191045
Coord A exon
chr2:180190802-180190904
Coord C2 exon
chr2:180190640-180190801
Length
103 bp
Sequences
Splice sites
5' ss Seq
GAGGTATCC
5' ss Score
7.59
3' ss Seq
ACCCTCACATGTGCTCACAGTTC
3' ss Score
7.14
Exon sequences
Seq C1 exon
GAGAACGTGCAGGGCTCAAGATGTGACCAGTGTCGCGTGGGGACCTTCTCCTTGGATGCTGCTAACCCCAAGGGCTGTACCCGCTGCTTCTGTTTCGGGGCCACAGAGCGCTGTGGGAACTCTAACCTCGCCCGCCATGAG
Seq A exon
GTATCCTGGTCTAGCCTGGGACTGAGGTGGGAGCCACTAGAGGGGCCCCACAGTGCAGGGCAAGGCCACATTTCCACTCTGTGACCCTCACATGTGCTCACAG
Seq C2 exon
TTCGTGGACATGGAGGGCTGGGTGCTGTTGAGCAGTGACCGGCAGGTGGTACCCCACGAGCATCGGCCTGAGATAGAGCTGCTGCACGCAGATCTGCGCTCTGTGGCTGACACTTTCTCAGAGCTGTACTGGCAGGCTCCGCCCTCCTATCTGGGAGACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647:ENSMUST00000015791:37
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=0.019
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(51.0=53.2)
A:
NA
C2:
PF0005213=Laminin_B=PU(8.0=20.4)
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:
GGGCTCAAGATGTGACCAGTG
R:
GCTCTGAGAAAGTGTCAGCCA
Band lengths:
254-357
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