MmuALTD0006750-2/2 @ mm9
Alternative 5'ss
Gene
ENSMUSG00000000938 | Hoxa10
Description
homeobox A10 [Source:MGI Symbol;Acc:MGI:96171]
Coordinates
chr6:52181196-52190549:-
Coord C1 exon
chr6:52190449-52190549
Coord A exon
chr6:52190277-52190448
Coord C2 exon
chr6:52181196-52182779
Length
172 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TGTATTCTCTTAAACTCCAGGCA
3' ss Score
7.28
Exon sequences
Seq C1 exon
ACGAGATGGCGCACTCCCGATCAATGTCAAAGCCGCCAGGGAGCCCGGAACCCCAGCGAGATTCTTGGCCTTTGTTCGCTTCTGATACTAAGAGCAGCACG
Seq A exon
GTACGTTATTTCACTTGTCCGGCACCCCTTCGTATTCAAAAAGAGGGGGGGCCCCCGCGCTCAAGAAGTGATTGAGGCTGAAATTTAAAGCAAAGCGCCTTCGTTAGGCCTTTCCGCATCGCGGCGTGGAGAAGCTGCTGCCCCTTGGCAGTGATTTCTGAAATGAGTCAAG
Seq C2 exon
GCAGTTCCAAAGGCGAAAATGCAGCCAACTGGCTCACAGCAAAGAGCGGCCGGAAGAAACGCTGCCCTTACACGAAGCACCAGACGCTGGAGCTGGAGAAGGAGTTTCTATTCAACATGTACCTTACTCGAGAGCGGCGCCTAGAGATCAGCCGTAGCGTCCACCTCACGGACAGACAAGTGAAAATCTGGTTTCAGAATCGCAGGATGAAACTGAAGAAAATGAACCGAGAAAACCGAATCCGGGAGCTCACAGCCAACTTTAATTTTTCCTGATGAAACTTCCAGACAACGTCTTTTCGCTTCCTGAGCGCCTGGACCCATCCTCTGCCTCCAGCCTCTGCCCCAGAACTCACACCTGTGCCGGAGCCCCTTTCTCCCTCCCACACTCGCCATCTCCCAGGCCGTTTCGTCTGTGCAGGGCTGGTTTGTTCTGGCTTTTTTTGTTTGTTTGTTTCTTTGTCTGTTTGCTTGGTGTTTGTTTGCTTGTTTTCTGGGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000938-0-3,1-3-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.325
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=62.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCACTCCCGATCAATGTCAA
R:
GGACGCTACGGCTGATCTCTA
Band lengths:
254-426
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: