MmuALTA0008749-1/2 @ mm9
Alternative 3'ss
Gene
ENSMUSG00000079277 | Hoxd3
Description
homeobox D3 [Source:MGI Symbol;Acc:MGI:96207]
Coordinates
chr2:74563520-74564035:+
Coord C1 exon
chr2:74563520-74563654
Coord A exon
NA
Coord C2 exon
chr2:74563902-74564035
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TTTTTTTTTTTTTTAAGAAGAAG
3' ss Score
1.54
Exon sequences
Seq C1 exon
CTCGACAGTCTCAGCCCAGGGAGGCTCGGTGGCCGCAAACAGCGCCTGCCTCCGGGTCTGCAGCAGCAGTCATAGCAGCAGCAGAAGCAGCAGCAGCGGGATCCGAAAGTCCGGCGGGGCTGAGGGCCCAGAAAG
Seq A exon
NA
Seq C2 exon
AAGAAGGTCCTGGCTGCTCAGCTACTTGGTGGCCCCCATCCTGGCAAGCCGATGAGGGAACTCATTGCTGTAGCGAGCAGCAATACTTAGAAATGCACCGAGCCTACCTGCACCATCTCTGAAAGCCAGGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079277-3-7,3-6-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCATAGCAGCAGCAGAAGCA
R:
GCCACCAAGTAGCTGAGCAG
Band lengths:
100-103
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: