MmuALTA0008749-2/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000101174 | Hoxd4
Description
homeobox D4 [Source:MGI Symbol;Acc:MGI:96208]
Coordinates
chr2:74725463-74725978:+
Coord C1 exon
chr2:74725463-74725597
Coord A exon
chr2:74725842-74725844
Coord C2 exon
chr2:74725845-74725978
Length
3 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TTCTTTTTTTTTTTTTTAAGAAG
3' ss Score
7.44
Exon sequences
Seq C1 exon
CTCGACAGTCTCAGCCCAGGGAGGCTCGGTGGCCGCAAACAGCGCCTGCCTCCGGGTCTGCAGCAGCAGTCATAGCAGCAGCAGAAGCAGCAGCAGCGGGATCCGAAAGTCCGGCGGGGCTGAGGGCCCAGAAAG
Seq A exon
AAG
Seq C2 exon
AAGAAGGTCCTGGCTGCTCAGCTACTTGGTGGCCCCCATCCTGGCAAGCCGATGAGGGAACTCATTGCTGTAGCGAGCAGCAATACTTAGAAATGCACCGAGCCTACCTGCACCATCTCTGAAAGCCAGGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000101174-6-6,6-5-2/2
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
Cow
(bosTau6)
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:
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
- 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