MmuINT0089450 @ mm10
Intron Retention
Gene
ENSMUSG00000024421 | Lama3
Description
laminin, alpha 3 [Source:MGI Symbol;Acc:MGI:99909]
Coordinates
chr18:12462138-12462838:+
Coord C1 exon
chr18:12462138-12462235
Coord A exon
chr18:12462236-12462684
Coord C2 exon
chr18:12462685-12462838
Length
449 bp
Sequences
Splice sites
5' ss Seq
CAAGTTAGT
5' ss Score
4.22
3' ss Seq
GTCTTTTGTTGTCCTTGAAGCTG
3' ss Score
8.04
Exon sequences
Seq C1 exon
GACTACCTGGTGCTGCTTCCCAGGGACTACTATGAAGCATTCACCCTGCAAGTGCCAGTCACAGAGCCATGTGCCCACACAGGATCTCCCCAGGACAA
Seq A exon
GTTAGTATGGGGAGGAGGGTGCAGCCTCAATGCCATCAGACACCTCTGAAGGAGCCTTGAGTATGAAGGCTCAGATGGTGGGCCTTACAATCCCAACAGTTACAGGAAAGCCCATTGATAGGTTCGTTGTGATTTGTTTGTTCTGAGCCTTATTTGAGTAAGAATCCCCAAGCACACTGCATGACAGTTCGTGCATGTGGGGATGCTGCTACATACCCCAAAGTCATCTCGAAGCCATGCATCTGATGAGGGAAGAGCTTAAAAAAGAATGCATGTTCTCAGACCTTTGTTTCTTCCCTTTGTGGTGTGGGGAACTTACTGCTCAATGCCTGTGATGTCCGTTTCCTAAGACTTTGTTGAAAGGACGTCTAGTGACTGGGATCGCTGAGTCCTTGTAGGGAGCTATATCATGCTCATGTGATAACAACTGTCTTTTGTTGTCCTTGAAG
Seq C2 exon
CTGTTTGCTTTACCAGCATTTACCACTGACTGCATTCTCCTGTACCCTGGCTTGTGAGGCCAGACACTTCCTGCTGGATGGAGAGCTGAGACCCTTGGCAATGAGGCAGCCCACACCCACACACCCAGCCATGGTGGACCTCAGCGGGAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024421:ENSMUST00000092070:22
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=0.019
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTACCTGGTGCTGCTTCC
R:
CTCTCTCCCGCTGAGGTCC
Band lengths:
252-701
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