MmuINT0089737 @ mm9
Intron Retention
Gene
ENSMUSG00000026478 | Lamc1
Description
laminin, gamma 1 [Source:MGI Symbol;Acc:MGI:99914]
Coordinates
chr1:155096695-155097097:-
Coord C1 exon
chr1:155096975-155097097
Coord A exon
chr1:155096885-155096974
Coord C2 exon
chr1:155096695-155096884
Length
90 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
GCCTAACTTCTACCTTCCAGTGA
3' ss Score
6.05
Exon sequences
Seq C1 exon
ATGAGGATGGGTGGCGCGTGGAGCAGAGAGATGGCTCGGAGGCGTCTCTGGAGTGGTCCTCAGACAGGCAAGATATTGCCGTAATCTCAGACAGTTACTTTCCTAGATACTTCATCGCCCCTG
Seq A exon
GTAAGTGAGGCTGCAGAGCCACACAGCTTTCTAGATCCTTCTCTTGGTCACATCCTCACACCCTGACCCAGCCTAACTTCTACCTTCCAG
Seq C2 exon
TGAAGTTCCTGGGCAACCAGGTCCTGAGTTATGGGCAGAATCTTTCCTTCTCCTTCCGAGTGGACAGACGAGACACTCGCCTCTCCGCAGAGGACCTTGTGCTCGAAGGAGCTGGCTTGAGAGTATCCGTGCCCTTGATCGCTCAGGGCAACTCCTACCCCAGCGAGACCACTGTGAAGTACATCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026478-Lamc1:NM_010683:9
Average complexity
IR-S
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:
PF0005213=Laminin_B=PU(3.8=11.9)
A:
NA
C2:
PF0005213=Laminin_B=FE(48.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTCCTCAGACAGGCAAGAT
R:
CTTCGAGCACAAGGTCCTCTG
Band lengths:
178-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: