MmuINT0089600 @ mm9
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:179916277-179917173:-
Coord C1 exon
chr2:179917063-179917173
Coord A exon
chr2:179916457-179917062
Coord C2 exon
chr2:179916277-179916456
Length
606 bp
Sequences
Splice sites
5' ss Seq
CGAGTATGT
5' ss Score
6.61
3' ss Seq
ATGGTCTCCATCTGTTACAGGCG
3' ss Score
8.41
Exon sequences
Seq C1 exon
CTCAGGGCCGTCTGCAGGCTGCGGGGATCCAGCTTCATAATGTCTGGGCCAGGAAGAACCAGCTAGCAGCCCAGATCCAGGAGGCACAAGCCATGCTGGCCATGGACACGA
Seq A exon
GTATGTGGCTTCTTCCTGCTCTTGCCTGTCACTCTTCCGTACTCAGTAGTACCTAATGAGTCAGTCCATGCTGTGGTTAGTGTGTCCGATGAGGCTCGAGTGCCAAGGGGCACTCTGGGCTTGTGCCTCTGATGGGTGGCACAGGTCACCGACACAGTGGCCCTGTAGGCACTTGGCACTGGGGTAGTTACTGGAGGATGTAGGAGCGTGCCCCTTGGTTTGGGAGAAGGGCATTCCTGGAAAAGACCTGCTGACCTGTGAGCACAGAGGTCAGAGTGGGGTTCATCTGGCTGCCTTTCCAAGAGAGCTCAGAACTGACAACAGCATGGTCTGACCCTGTCGTCTGGGTTTCTCTGTAGCCACCAAAATGTCCCAATGTCCCAGGCACTCATGGGCACAAACCTAGAAACCAGGCAAGACTTGGGAGTTGGTAATAGCCCCTGGGAGGGAGGGTTACAGGGCCATGAAGAGAAGCGTGGGTAGGATCTTGAATATATTGAGCTGCAAGTATGGCGCTTATGCTATCCACAGGGGTGGGTTCCCGCAGCAGAGGGCCCTAGGAACATGAAATTGGCTGCTGCTGGGAATGGTCTCCATCTGTTACAG
Seq C2 exon
GCGAGACCAGTGAGAAGATTGCTCACGCCAAGGCTGTGGCTGCCGAAGCCCTCAGTACGGCCACCCACGTGCAGTCTCAGCTTCAGGGTATGCAGAAGAATGTGGAGAGGTGGCAGAGCCAGCTGGGAGGCCTGCAAGGCCAGGACCTGAGCCAGGTGGAACGGGATGCAAGCAGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647-Lama5:NM_001081171:58
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=NA C2=0.289
Domain overlap (PFAM):
C1:
PF060097=Laminin_II=FE(30.3=100)
A:
NA
C2:
PF060097=Laminin_II=PU(38.9=83.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAGGGCCGTCTGCAGG
R:
TGAACTGCTTGCATCCCGTTC
Band lengths:
290-896
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: