MmuINT0089569 @ mm9
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:179941892-179943076:-
Coord C1 exon
chr2:179942959-179943076
Coord A exon
chr2:179942011-179942958
Coord C2 exon
chr2:179941892-179942010
Length
948 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
TTCTTACCCGTTTCCTGCAGCCT
3' ss Score
8.4
Exon sequences
Seq C1 exon
GTGTTCCATGTGGCCTATGTGCTCATCAAGTTTGCCAACTCACCTCGGCCTGACCTCTGGGTGCTGGAGCGGTCCACAGACTTCGGTCACACTTATCAGCCGTGGCAGTTCTTTGCCT
Seq A exon
GTGAGTGTCCTTAGCTGCAGGACTGGAGTCCTTGCGGTAGGCCTATAGTTGCTTCAAGGCCCCTGATGCCAAGCAAGCCCTGACCCCTGTGATGGCCTCTTTAGGGTTCATTGCTGCCAGCGCCACCTAGGGGTAGATGGGAGCTTATCGACTCCCACGCTTGACCTTGGACATAGCTGGTGTTACACTGGTGGTACCAGGAATCTTTGGGCCATTTTATGGCTCCTCTAGATAGGCTTGAGCTCAGGCGGCTCCCGTGGAAACAAAGCAGCTCTGGCAGCTGTGGGCCTACCTCCTGCCAGCTTTACTGCCTGTGGCAGGAGACAGCTGGAGTCCTTGGCAGGCCCAGCCGGCCACATGCCACCTGACCAGTTTTGTTGGCAGGGTGGGGGTACTCTGATTAGATAGGCCTGGTGACACGTCCCCCAAAACTCCCTGGCCAAGAGTAAGAGAGGGGCAACTGCAGACTGCGCCTGCAGAGAAGTTAAGGAACACCATTCTCTGGCATGTCCCAGGAAGAGGCCTGGGCATCGTGGTAGCAAAGGCTCTGCAGTCCAGTCTACATTGAGCTAGGGTTTTGTTTTAAGATTTATTTATTTTTTTAAAAAAGAGTTATATGTATACAGCATTCTGTCTGCATATATGCCTGCAGACCAGAAGAGGACACCAGATCTCATTATAGATGGTTGCGAGCCACCATGTGGTTGCTAAGAATTGAACTCAAGACCTCTGGAAGAACGGCCAGTGCTTATCTTAACCTCTGAGCTATCTCTCTAGCCCCTAGCTAGGGTTTTGCTGTCTGTTTGATAACCCCTGCTGGTCAGTAGAACGTGGGGCAGCAATCTGTGTTTCGGAGTGTGTAGGCAACACAAGGATGCTAGGCTGGGGCCCAGGATGGGAGTCTGTATCTGGCATCTGTTACTCTACCTTCTTACCCGTTTCCTGCAG
Seq C2 exon
CCTCCAAGAGGGATTGTTTGGAGCGGTTTGGACCTCGGACTCTAGAGCGCATCACGCAGGACGACGACGTCATCTGCACCACAGAATACTCGCGAATAGTGCCTTTGGAGAATGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647-Lama5:NM_001081171:3
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=0.000
Domain overlap (PFAM):
C1:
PF0005512=Laminin_N=FE(15.4=100)
A:
NA
C2:
PF0005512=Laminin_N=FE(15.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTCCATGTGGCCTATGTGC
R:
CGCCATTCTCCAAAGGCACTA
Band lengths:
234-1182
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: