MmuEX6029021 @ mm10
Exon Skipping
Gene
ENSMUSG00000026686 | Lmx1a
Description
LIM homeobox transcription factor 1 alpha [Source:MGI Symbol;Acc:MGI:1888519]
Coordinates
chr1:167830546-167840972:+
Coord C1 exon
chr1:167830546-167830718
Coord A exon
chr1:167832817-167832894
Coord C2 exon
chr1:167840903-167840972
Length
78 bp
Sequences
Splice sites
3' ss Seq
ATGTATTCAATTTCTTCAAGGTG
3' ss Score
6.95
5' ss Seq
AAGGTAACC
5' ss Score
9.24
Exon sequences
Seq C1 exon
GCAAAAGCGATGATGAGGAGAGCCTTTGCAAGTCAGCCCATGGGGCAGGAAAAGGAGCATCAGAGGACGGCAAGGACCATAAGCGACCCAAACGTCCCAGAACCATCCTGACCACTCAGCAGAGGAGAGCATTCAAGGCCTCGTTTGAAGTATCCTCCAAGCCCTGCAGAAAG
Seq A exon
GTGAGGGAGACTCTGGCTGCGGAGACAGGGCTGAGTGTCCGTGTGGTTCAGGTGTGGTTCCAGAACCAGCGAGCCAAG
Seq C2 exon
ATGAAGAAGCTGGCCCGGCGACAGCAGCAACAGCAACAGGACCAACAGAACACCCAGAGGCTGACTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026686-'18-15,'18-8,22-15
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.552 A=0.115 C2=1.000
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(47.4=46.6)
A:
PF0004624=Homeobox=FE(43.9=100)
C2:
PF0004624=Homeobox=PD(3.5=8.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGGACGGCAAGGACCATAA
R:
TCTGGGTGTTCTGTTGGTCCT
Band lengths:
170-248
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