MmuINT0089565 @ mm10
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:180194675-180195299:-
Coord C1 exon
chr2:180195146-180195299
Coord A exon
chr2:180194836-180195145
Coord C2 exon
chr2:180194675-180194835
Length
310 bp
Sequences
Splice sites
5' ss Seq
GATGTGGGT
5' ss Score
2.02
3' ss Seq
GTCACCTTGCCCTCCCTCAGGTG
3' ss Score
9.63
Exon sequences
Seq C1 exon
CTGTCTTGTCTATGCTCACCTACCCCTGGATGGCTTCCCTTCAGCAGCTGGAACTGAGGCCCTGTGTCGCCATGACAACAGCCTGCCCCGGCCCTGCCCCACAGAGCAGCTCAGCCCCTCACACCCACCGCTGGCGACCTGCTTCGGCAGTGAT
Seq A exon
GTGGGTATCTGAGGGCCTGTGGGGGAGTGGGTGCTGTGGACCTTAGGCTGGAGGAGGGACCTATCTCAGTGGTGGAGTGGATGCAAGACAAGGTTGTAAGATGATGGAGCTGCCGTGCACGGCCTGGAGTGGCTGTGGCTGTCCCCAATGGACACTGGGTGTGAAGCAGATTCACCTAGCTTTTCTGCCTCCTCCATCACCTGGATCAGCCCTCTCCTGCTTGGAGATGCCCTGGGCTCTAAGATCTAGCTGTAGGAAGCCATGGGAAGGATGAGGACTATGGGGCTCTGGTCACCTTGCCCTCCCTCAG
Seq C2 exon
GTGGACATCCAGCTCGAGATGGCCGTGCCTCAGCCTGGCCAATATGTTCTCGTGGTGGAATATGTCGGTGAGGATTCACACCAAGAGATGGGAGTGGCTGTGCACACCCCTCAGAGAGCCCCCCAGCAAGGGGTGCTCAACCTCCACCCCTGCCCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647:ENSMUST00000015791:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.115 A=NA C2=0.167
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TTGTCTATGCTCACCTACCCCT
R:
CTGTATGGGCAGGGGTGGAG
Band lengths:
310-620
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