MmuEX6029022 @ mm10
Exon Skipping
Gene
ENSMUSG00000026686 | Lmx1a
Description
LIM homeobox transcription factor 1 alpha [Source:MGI Symbol;Acc:MGI:1888519]
Coordinates
chr1:167791337-167832894:+
Coord C1 exon
chr1:167791337-167791569
Coord A exon
chr1:167830546-167830718
Coord C2 exon
chr1:167832817-167832894
Length
173 bp
Sequences
Splice sites
3' ss Seq
CGTTCTCTGCTTCATTTTAGGCA
3' ss Score
10.13
5' ss Seq
AAGGTATAA
5' ss Score
7.08
Exon sequences
Seq C1 exon
ACTGTTTGCTGTCAAATGTGGGGGCTGCTTCGAGGCCATTGCGCCCAATGAGTTTGTCATGCGTGCCCAGAAGAGCGTATACCACCTGAGCTGCTTCTGCTGCTGCGTCTGTGAGCGACAGCTGCAGAAGGGTGACGAGTTTGTCCTGAAGGAGGGCCAGCTGCTCTGCAAAGGGGACTATGAGAAAGAACGGGAGCTGCTGAGCCTGGTGAGCCCTGCGGCCTCAGACTCAG
Seq A exon
GCAAAAGCGATGATGAGGAGAGCCTTTGCAAGTCAGCCCATGGGGCAGGAAAAGGAGCATCAGAGGACGGCAAGGACCATAAGCGACCCAAACGTCCCAGAACCATCCTGACCACTCAGCAGAGGAGAGCATTCAAGGCCTCGTTTGAAGTATCCTCCAAGCCCTGCAGAAAG
Seq C2 exon
GTGAGGGAGACTCTGGCTGCGGAGACAGGGCTGAGTGTCCGTGTGGTTCAGGTGTGGTTCCAGAACCAGCGAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026686-'7-12,'7-7,18-12=AN
Average complexity
A_C3
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.552 C2=0.115
Domain overlap (PFAM):
C1:
PF0041217=LIM=PD(3.6=2.5),PF0041217=LIM=WD(100=74.7)
A:
PF0004624=Homeobox=PU(47.4=46.6)
C2:
PF0004624=Homeobox=FE(43.9=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCCTGGTCTACAAAGTGAGT
R:
AATGTTTCTTGGGATCCCCTGG
Band lengths:
202-375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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