MmuINT0089716 @ mm10
Intron Retention
Gene
ENSMUSG00000026478 | Lamc1
Description
laminin, gamma 1 [Source:MGI Symbol;Acc:MGI:99914]
Coordinates
chr1:153242629-153243476:-
Coord C1 exon
chr1:153243231-153243476
Coord A exon
chr1:153242783-153243230
Coord C2 exon
chr1:153242629-153242782
Length
448 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
TCTCTGTCTCCCCACCCTAGCCT
3' ss Score
8.43
Exon sequences
Seq C1 exon
GCAAGAGATGTGAACTCTGTGATGACGGCTACTTTGGAGACCCTCTGGGCAGCAATGGGCCTGTGAGACTGTGCCGCCCGTGCCAGTGTAACGACAACATAGACCCCAACGCGGTTGGCAACTGCAACCGCCTGACGGGCGAGTGCCTGAAGTGCATCTATAACACGGCTGGTTTCTACTGCGACCGGTGCAAGGAAGGGTTTTTCGGAAATCCCCTGGCTCCCAATCCAGCCGACAAATGCAAAG
Seq A exon
GTTAGTCACTGGCCAGACTCAGTCACGCCCACACCTCGATGTACAGATCCACAGTGGGGTCTCTCTCAGTACTTACAGAAGTTTTCGAGAATGCAGTGTGAACCACTTCTTGCAGAACTTAAAATTGCTACACTCCATCAAAAACGTAAAACAGGAGAATTAATTTAGTATGCTTAACAATGTAGCCAGTGTTTTATTGCTTACTATTATGCAGGTAATCATCTGTTAAAAACCATTAATAAGATGGTTCTTTTCTCACCCTATGTTTACAAGGGCAATGTGTTTTAATTGCTAGCACATCTCTGTTCAGACTGCCAAGACAAGACTCTCTGCCGTATCGGCTTCTGTGTGAGACAACACAGGCCTAGAGAACCTGGTCCAGTGCCTTAGGTTTTACTGCTCTCCCTGGAGATTTGCATCTGTTGCTTTCTCTGTCTCCCCACCCTAG
Seq C2 exon
CCTGCGCCTGCAATCCCTACGGGACAGTGCAGCAACAGAGCAGCTGTAACCCGGTGACCGGACAGTGCCAGTGTCTGCCTCATGTGTCTGGCCGCGACTGCGGTACTTGTGACCCTGGCTACTACAACCTGCAGAGCGGGCAAGGCTGCGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026478:ENSMUST00000027752:14
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:
PF0005319=Laminin_EGF=PD(42.3=26.5),PF0005319=Laminin_EGF=WD(100=65.1)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=94.2)
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:
CGGCTACTTTGGAGACCCTCT
R:
GCTCTGCAGGTTGTAGTAGCC
Band lengths:
358-806
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