MmuINT0089593 @ mm10
Intron Retention
Gene
ENSMUSG00000015647 | Lama5
Description
laminin, alpha 5 [Source:MGI Symbol;Acc:MGI:105382]
Coordinates
chr2:180184401-180185440:-
Coord C1 exon
chr2:180185329-180185440
Coord A exon
chr2:180184572-180185328
Coord C2 exon
chr2:180184401-180184571
Length
757 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
TGACAATCCCCTCTCTGTAGAGC
3' ss Score
7.57
Exon sequences
Seq C1 exon
GCCACAGGGGTCCAAGGTCAGGCAGGCCAGCTACTGGACACCACAGAGTCCACACTGGGCCGGGCACAGAAGTTGTTGGAGTCTGTGCGAGCTGTGGGCCGTGCCCTGAATG
Seq A exon
GTAAGGCTCTCGTTGATGCTTGGCCCAGTATAGGGTGAGCTGCTTGGAGGGGTGGGACGGGCGGGGCCTCCTGGAAGTCTCCTCTTGAGCTGGCTGGGTCCTGTGTGTTTATTCTCTGGGAGAGTGGATCATATAGAACCACGGGGAGTACTAGCAAACCTTAGTGAGGAACAGACCAGCAGCAGCTGAAAGGAAACTGGGGCTCCCAATCGTTTTTTTGTTTTTTTAAAGATTTATTTATATATTTCATGTATGTGAGTACAGACCAGCAGCAGCTGAAAGGAAACTGGGGCTCCCAATCGTTTTTTGTTTTTTTAAAAGATTTATTTATATATTTCATGTATGTGAGTACACCATCGTCGCTGTCTTCAGACACAACAGAAGAGGGCATAGGATCCCATTACAGATGGTTTTGCGCCACCATGTGGTTGCTGGGATTTGAACTCGGGACCTTCAGAAGAGCAGTCAGTGCTCTTGACCGCTGAGCTATCTCTCCAGCCCAGGGCTCCCAATCTTATGACAGGATCTGGCACAGCCAAAGGAGTGGGGAAAAGTGAACTTTCTGCTTGAGGAAGGCTGAACCAGCATGTCAGGATTAACAGAAAGGCAGAGAGGGGTCTTAATCTTGGGCTCCAAGAGCCTGTGAAGTGCTGCTGGGATATGTGCTGGCGGCCTGCCGAAATGCCTTGGGCAGCTCTCAGGCTTGGAAGTGGGTGATGGAGTCTAGCCCCAGACCCTGACAATCCCCTCTCTGTAG
Seq C2 exon
AGCTGGCATCTCGCATGGGCCAAGGATCTCCAGGCGATGCCTTGGTACCGTCTGGCGAGCAGCTGCGCTGGGCTCTGGCTGAAGTGGAGCGGCTGCTCTGGGATATGCGGACGCGTGACCTGGGGGCCCAGGGGGCAGTGGCAGAGGCCGAACTGGCCGAAGCCCAGAGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015647:ENSMUST00000015791:51
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.395 A=NA C2=0.328
Domain overlap (PFAM):
C1:
PF060089=Laminin_I=FE(14.0=100)
A:
NA
C2:
PF060089=Laminin_I=FE(21.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CACAGGGGTCCAAGGTCAGG
R:
CTCTGCCACTGCCCCCTG
Band lengths:
256-1013
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