MmuINT0089572 @ mm10
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:180192389-180193002:-
Coord C1 exon
chr2:180192863-180193002
Coord A exon
chr2:180192505-180192862
Coord C2 exon
chr2:180192389-180192504
Length
358 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
CACCTGGTCTTGTTCCATAGGAC
3' ss Score
10.14
Exon sequences
Seq C1 exon
GCCACGCCAACGCCAGCTTTTGTCCTCATGGTTATGGCTGCCGTACCCTGGTGTTGTGTGAGGGTCAGACGATGCTGGATGTTACAGACAACGAGCTCACCGTGACTGTGCGTGTGCCAGAAGGCCGGTGGCTCTGGCTG
Seq A exon
GTGAGCCTCAGGGCTGGTTTGCCACTTGCAGAGTGGCCTTCCCTTTACGCCCGTCCCATATCTGTGGGTCTTAGCTCGAGTGTATCACCTGATTTGTCAGGGTATCCCCCATCACAGGTGCACCATGGGAGAGGCTCTGAGCCACTAAGCCCAGCTGGTGGACAGAAGTGGAAGGGGAGGCTGGGTAACAGAGAAGAAAAGGGGACCTGAGCAATGCTAGATGTTTGGCTTGCTGTCCCTTCACTATCTGCCAGACTAGGACTACCATGCTCTGGCCTTAACCAGTCTGAGGAGTCTGCCCCAGCCAGGCCCTTCTGCCAGACCCTTGCAAAGATGACCACCTGGTCTTGTTCCATAG
Seq C2 exon
GACTACGTACTCATTGTCCCTGAGGATGCTTACAGCTCCAGTTACCTCCAAGAGGAGCCTTTGGACAAATCCTATGACTTCATCAGCCACTGTGCCACCCAGGGCTACCACATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647:ENSMUST00000015791:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CACGCCAACGCCAGCTTTT
R:
CTAATGTGGTAGCCCTGGGTG
Band lengths:
254-612
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