MmuINT0089599 @ mm9
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:179917063-179917574:-
Coord C1 exon
chr2:179917472-179917574
Coord A exon
chr2:179917174-179917471
Coord C2 exon
chr2:179917063-179917173
Length
298 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TGCCTCCCCTCCCTCCACAGCTC
3' ss Score
12.38
Exon sequences
Seq C1 exon
ATGGTGGTGCAGCGGGGCCTAGCAGCTGGAGCCCGGCAGCTGTTAGCCAACAGCAGTGCCCTGGAGGAGACCATCCTTGGACACCAGGGGAGGCTGGGCCTTG
Seq A exon
GTGAGTGCATAGATCCTAGAGTACACTGATATCTGGGACATGTCCCTATAGCTTCGGGATGATTCTAGTGTGTTTCAGTGTAAGAATCAATAGGTACTAAATGTGCCTGCCCTATGTGTCTTCTACTCCACAGGATCTACTGGCGCGGGGGGGGGGGGGGGGGGGGGGTGGCGATAATGTCTGCCTGTCTTAGGATGAATGAAGCTCAAGGCCCCTATCTTTGTCCTCACTCCATTTGTGGGCCAGGAGGGTTGGGTGGAACTTCTTGCCACTGAGGCTGCCTCCCCTCCCTCCACAG
Seq C2 exon
CTCAGGGCCGTCTGCAGGCTGCGGGGATCCAGCTTCATAATGTCTGGGCCAGGAAGAACCAGCTAGCAGCCCAGATCCAGGAGGCACAAGCCATGCTGGCCATGGACACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647-Lama5:NM_001081171:57
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.039
Domain overlap (PFAM):
C1:
PF060097=Laminin_II=PU(19.7=68.6)
A:
NA
C2:
PF060097=Laminin_II=FE(30.3=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GGGGCCTAGCAGCTGGAG
R:
GTGTCCATGGCCAGCATGG
Band lengths:
199-497
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: