MmuEX0026399 @ mm9
Exon Skipping
Gene
ENSMUSG00000026890 | Lhx6
Description
LIM homeobox protein 6 [Source:MGI Symbol;Acc:MGI:1306803]
Coordinates
chr2:35937474-35946935:-
Coord C1 exon
chr2:35946840-35946935
Coord A exon
chr2:35946482-35946656
Coord C2 exon
chr2:35937474-35939595
Length
175 bp
Sequences
Splice sites
3' ss Seq
TGCAGAGGCTGTCGTTCCAGGTG
3' ss Score
3.81
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GTTATGCAGGCGCAGTTCGCGCAGGACAACAACCCGGACGCGCAGACGCTGCAGAAGCTAGCGGACATGACGGGCCTCAGTCGCAGGGTCATCCAG
Seq A exon
GTGTGGTTTCAAAACTGCCGAGCGCGTCATAAAAAGCATACACCGCAGCACCCAGTGCCGCCCTCTGGGGCACCCCCGACCCGCCTCCCTTCTGCCCTGTCCGACGACATCCACTACTCTCCGTTCAGCAGCCCAGAGAGGGCGCGCATGGTCACCTTGCACGGCTACATTGAGA
Seq C2 exon
GTCATCCTTTTTCAGTACTAACGCTGCCGGCGCTTGCACATCTGTCCATGGGCACCACACAGCTGCCCCTCAGCCGCTGAGATCCAGCATCCAGCTGTGGCCAGGGATCCACCACCTCTGTGTACACCCTCACCCGCTGCTGTCCTGCCCTCTGCCAGTGGCCCCATCAACCCAGGCCTGGTCTTTCCCTCTCCTGCTGAGAACCAGAACCCACCAGGAGCAGCAGAGTCCCTCTCTGGGAAGGCAGGCTCCCTGAAATGTGGCATCAGCATGAAAACAAGCAGCCTGTCTTTCCTCATTAACTGGGAGTCCCACTTACCTACTGTCAGCTGATCACAGCAGCAATGGCTAATTCAGTCCGAGTCAACAACAGCCTCCTACTTCACAGGTTCTCTTCTCCCCCACATTGGCCTTTATTTACTACTTCCTTGGAACCATCTCCAAATTCCAAATAGCCAACAACCCCCAACATTATATACTCTGCTGCTTTTGTCTGGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026890_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.531 A=0.585 C2=0.149
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=FE(54.4=100)
A:
PF0004624=Homeobox=PD(19.3=18.6)
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAAGCTAGCGGACATGACG
R:
TCAGCAGGAGAGGGAAAGACC
Band lengths:
245-420
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: