MmuALTA0008750-2/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000027102 | Hoxd8
Description
homeobox D8 [Source:MGI Symbol;Acc:MGI:96209]
Coordinates
chr2:74705971-74706617:+
Coord C1 exon
chr2:74705971-74706118
Coord A exon
chr2:74706514-74706516
Coord C2 exon
chr2:74706517-74706617
Length
3 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGG
5' ss Score
4.94
3' ss Seq
TTGTTGTTGTTTTTAATCAGCAG
3' ss Score
5.38
Exon sequences
Seq C1 exon
AGACAGCCGATTTTTACGACCCAGCAAGAGGCCGAGCTGGTACAATATCCTGACTGTAAATCGTCCAGTGGTAATATTGGCGAGGACCCAGACCACTTAAATCAGAGCTCGTCTCCTTCTCAAATGTTTCCCTGGATGAGACCACAAG
Seq A exon
CAG
Seq C2 exon
CTCCTGGTAGACGGAGAGGAAGACAAACCTACAGTCGCTTCCAAACCCTAGAGTTGGAAAAGGAATTCCTTTTTAACCCTTATCTGACCAGGAAGAGGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027102-2-4,2-3-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.645 A=NA C2=0.510
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=57.6)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGAGCTCGTCTCCTTCTCA
R:
GGGTTTGGAAGCGACTGTAGG
Band lengths:
95-98
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