MmuINT0089458 @ mm10
Intron Retention
Gene
ENSMUSG00000024421 | Lama3
Description
laminin, alpha 3 [Source:MGI Symbol;Acc:MGI:99909]
Coordinates
chr18:12402035-12402913:+
Coord C1 exon
chr18:12402035-12402152
Coord A exon
chr18:12402153-12402794
Coord C2 exon
chr18:12402795-12402913
Length
642 bp
Sequences
Splice sites
5' ss Seq
CTCGTAAGT
5' ss Score
9.63
3' ss Seq
TCAATTACTTTCTTTCCTAGATT
3' ss Score
8.85
Exon sequences
Seq C1 exon
CTCTTCCATGTGGCTTATATCTTAATCAAATTTGCAAACTCTCCCCGCCCTGATCTTTGGATCCTGGAAAGATCTGTAGACTTTGGAAGCACCTACTCACCATGGCAGTATTTTGCTC
Seq A exon
GTAAGTAATCGTGTCTTCTGTGCTATGAGGGGCTTTGAGTATCTGAAACTGCTTAAGACTATGGATTTAGTTTTCTTAAAAAAGTGTCTCAGTGTGACTAGGTAGGGCTTGGACCTTCTAAGTTGTTCTCAAAAGAGCCCAATTTCTTAGTCATGTATGTGCTGATTCTAAGGCTCCCACATGCACACATGTGGAATGAAGGGTGCAACTCCTTTTATAATAATTTTGCTCCAACTGGTGCGAGGTGCCTGTAAGTGGGCTGCGACTTGAGCTCTCCTTTTATGAGGAGTCAGGAACAAACTCCATCCTGGGCTCCAGGTTGCTTACTTTGAACCTCTTATCTTTGCTATTGAACTATGTAAGTGTCTCAGGACCACAGGATGAATCCAGGGAGCAGCACTTTTGCTTACTTGAGACATGAAGAGTTAATAACATATCTTCAACTGCGGTGCCTGAAGGGCACTTGAACTGAACTATCGGGTATTTCTTTTTCATGAATTAAAAACTTTGTCCTAAGCCTTCACCTAGAAGTACAGGAGTTCTTGGCTCTTCTCTTTTCATCTCTCCTAAGGAAACACAAGGCATCTGAAGTGGCCAAGGAGAAAGCAATGTGTGATAATGTTCAATTACTTTCTTTCCTAG
Seq C2 exon
ATTCTAGAAGAGATTGTGTAGAACAGTTTGGGCAAGAAGCAAACATGGCAATTACCCAGGACGACCAGATGCTCTGTGTCACGGAGTATTCCCGTATCGTGCCTCTGGAAAATGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024421:ENSMUST00000092070:3
Average complexity
IR
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(15.5=100)
A:
NA
C2:
PF0005512=Laminin_N=FE(15.5=100)
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:
CTTCCATGTGGCTTATATCTTAATCA
R:
GCCATTTTCCAGAGGCACGAT
Band lengths:
232-874
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