MmuALTA1015749-2/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000026686 | Lmx1a
Description
LIM homeobox transcription factor 1 alpha [Source:MGI Symbol;Acc:MGI:1888519]
Coordinates
chr1:167689753-167692167:+
Coord C1 exon
chr1:167689753-167689850
Coord A exon
chr1:167691981-167691984
Coord C2 exon
chr1:167691985-167692167
Length
4 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
AACATCTGTTGCTGTTGTAGGCA
3' ss Score
8.16
Exon sequences
Seq C1 exon
GTCCTCCTGGCTCACCCCGAACATGTTGGACGGCCTGAAGATGGAGGAGAACTTTCAAAGTGCGATTGAGACCTCGGCATCTTTCTCCTCTTTGCTGG
Seq A exon
GCAG
Seq C2 exon
AGCGGTGAGCCCCAAGTCTGTCTGCGAGGGCTGTCAGCGGGTCATCTCGGACAGGTTTCTGCTGCGGCTCAACGACAGCTTCTGGCACGAGCAATGCGTGCAGTGTGCCTCCTGCAAAGAGCCCCTGGAGACCACCTGCTTCTACCGGGACAAGAAGCTCTACTGCAAGTACCACTACGAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026686-2-4,2-3-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0041217=LIM=PU(94.6=84.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGTGCGATTGAGACCTCGG
R:
GAAACCTGTCCGAGATGACCC
Band lengths:
101-105
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