MmuALTD0007826-2/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000038765 | Lmx1b
Description
LIM homeobox transcription factor 1 beta [Source:MGI Symbol;Acc:MGI:1100513]
Coordinates
chr2:33560965-33565225:-
Coord C1 exon
chr2:33565082-33565225
Coord A exon
chr2:33565061-33565081
Coord C2 exon
chr2:33560965-33564793
Length
21 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
GTCCCTTCTGCATCCCACAGGGA
3' ss Score
9.83
Exon sequences
Seq C1 exon
AGGTTCTGTCAAGCCGCATGGAGGGCATGATGGCCTCCTACACGCCGCTGGCCCCTCCGCAGCAGCAGATCGTGGCCATGGAGCAGAGCCCCTACGGAAGTAGCGACCCCTTCCAACAGGGCCTCACGCCGCCCCAAATGCCAG
Seq A exon
GTGACCACATGAACCCCTATG
Seq C2 exon
GGAACGACTCCATCTTCCACGATATCGATAGTGATACCTCCCTCACCAGCCTCAGCGACTGCTTCCTCGGCTCTTCCGACGTGGGCTCCCTGCAGGCCCGCGTGGGGAACCCCATTGACCGGCTCTACTCCATGCAGAGCTCCTACTTTGCCTCCTGAGAGCCAGCCGGGCCGCATGGACGCTTGGGCCTGGGCCTAGGGTGGAGCCACAGGCCTCTGCAGCCAGCCGGCCCCCCAGCCCACCACCCGCTCAGACTCTTCAGACAGCCATACGGTGCCCTCCCCTCGGCCAGCCAGACCTGGCTCAAGTGCCCACCGGGCACAGCCAGGCAAGGCAGATGGGTGCAGCCTGGGCAGGGACTGTGTCCTGCCCACAGAGACCTTGTGACCCCTGGGGACCCAGAGCTCTTGGACAGTCACTTGCCTCCCAGTCCTTTGACTTCATCACTACCTTCCCCGTCCCCGCCTCTTTTTGGGGGAAGCTTAAATTTGTTCGTTCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038765-11-10,12-10-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.971 A=NA C2=0.221
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACGGAAGTAGCGACCCCTTC
R:
GCTGGTGAGGGAGGTATCACT
Band lengths:
102-123
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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