MmuINT0089609 @ mm10
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:180179606-180179958:-
Coord C1 exon
chr2:180179836-180179958
Coord A exon
chr2:180179755-180179835
Coord C2 exon
chr2:180179606-180179754
Length
81 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGG
5' ss Score
9.63
3' ss Seq
CTGCTACCCATCCCTTGCAGATC
3' ss Score
10.41
Exon sequences
Seq C1 exon
AGCCAGTTCTTGTGCCTGGCAGTGCAGGAAGGCACCCTGGTGCTCTTCTATGACTTCGGCTCTGGCCTGAAGAAGGCCGACCCACTGCAGCCCCCACAAGCCTTGACGGCAGCCAGCAAGGCG
Seq A exon
GTAAGGCAAGGAAGGGGCCTGGGGATGGGAGGACCAGCAGAGAAATTTGGCTTTCCTGTGCCTGCTACCCATCCCTTGCAG
Seq C2 exon
ATCCAAGTGTTTCTATTGGCTGGCAATCGCAAACGTGTGTTGGTGCGTGTGGAGCGGGCCACTGTGTTCAGCGTAGACCAGGATAACATGCTGGAGATGGCTGATGCCTACTACTTGGGAGGTGTGCCACCTGAACAGCTGCCCTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647:ENSMUST00000015791:66
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=FE(30.8=100)
A:
NA
C2:
PF0221019=Laminin_G_2=FE(37.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGCTCTTCTATGACTTCGGC
R:
TCCTGGTCTACGCTGAACACA
Band lengths:
168-249
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