MmuINT0089559 @ mm9
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:179931189-179931846:-
Coord C1 exon
chr2:179931741-179931846
Coord A exon
chr2:179931289-179931740
Coord C2 exon
chr2:179931189-179931288
Length
452 bp
Sequences
Splice sites
5' ss Seq
GTAGTAAGT
5' ss Score
8.01
3' ss Seq
CCCCACCCCCCCCAACACAGGCT
3' ss Score
5.54
Exon sequences
Seq C1 exon
GGCAATGGGCAGTGCTTCTGCAAGGCTCACGTGTGTGGCAAGACCTGTGCAGCCTGCAAGGATGGCTTCTTTGGCCTGGATTATGCTGACTACTTTGGCTGCCGTA
Seq A exon
GTAAGTGCTCATACACTGCCCAACCCCCCCACCCCCCCACCCCCCACCCCCCACCCCCCCCACCCCCACCCCCGCGCTGGAAGACTGAGGCCCAGGGAGGTACAAGTGGGTCAGGCACGGAGGGGTCTCGCCCTGACAATAGCAAGAGGAGGAGATGTTCAACCCCCCCATACGCCACCCCGCCACCGCCAGCCTGTGCCGGGTCTATCTCTGTTCTGACACATGGCCCCTTTGCTCCATCCTGTGTTCGTAACAGACATCACTAATCCATCCCAGATCCCTTACCCCTCCCCCCAAAGCAGACCTGAAGAGTTGATGTTAGTTTATCTACTAAGGGTGGGTAGAGAGAGATGTGCCTATGGGGCCTAACCAGGAGGGTTGTGGGAGGGGCCCCTGAAGGTGCTAGGGGCTAGGCAGCCTCTGACCCTTCCCCCCCACCCCCCCCAACACAG
Seq C2 exon
GCTGTAGGTGTGATGTTGGTGGTGCCCTGGGTCAAGGCTGTGAACCAAAGACAGGTGCCTGCAGGTGCCGCCCTAACACCCAAGGACCCACCTGTAGCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647-Lama5:NM_001081171:20
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:
PF0005319=Laminin_EGF=PD(66.0=91.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PU(71.1=94.1)
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:
CTTCTGCAAGGCTCACGTGTG
R:
TCGCTACAGGTGGGTCCTTG
Band lengths:
192-644
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: