MmuALTA1000769-3/3 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000001661 | Hoxc6
Description
homeobox C6 [Source:MGI Symbol;Acc:MGI:96197]
Coordinates
chr15:102998257-103010005:+
Coord C1 exon
chr15:102998257-102998771
Coord A exon
chr15:103009660-103009779
Coord C2 exon
chr15:103009780-103010005
Length
120 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
GCCACCTCGCCGGGGGCCAGGAC
3' ss Score
1.08
Exon sequences
Seq C1 exon
AGGGAAACCTGCGCTGGGCGCTCCGTTCATTACCAGAAATTTTTTATTAATCTGATTAATAATTATTTTCCCTATTTAATTTTTTTCCTTAGGTGGAGTTGCCGGAAGCTGGGGGCACCTGGGGAGGACGGGGTGGGAGGGGAGAGGCAGAAGTTGAGAGCACCTCTCTCTCCCTATACCCGACCCTCTGGCCCCCAAGGGGCAAGAGGTTCGCGGGTGTGGGGGCTGAGATCCGAGCTGCAGATGCCTCCACCCCTCCCCTTTCCCAGATTCTCCCTCCCGCCCCTTCCCTGCAACTCTCCTTAATTTTATTTGGCTTTTTAAAAAAAATCAGGACTTTTTATTTATTTTTAAATTTATATAAAGTATATGTGTGTGTGTGTGGAGCTGAGACAGGCTCGGCAACGGCACAGAATGAGGAAAGACGAGAGAGACAGAGAGTGGGAGAGAGAGAGAGGCAGAGAGAGAGAGGGAGAGAGGGAGAGTGACAGCAGCGCCCG
Seq A exon
GACGTCCTCCCCAACGTCGCCCTCAATTCCACCGCCTATGATCCAGTGAGGCATTTCTCGACCTATGGAGCAGCCGTAGCTCAGAACCGGATCTACTCGACTCCCTTTTATTCGCCACAG
Seq C2 exon
GAGAATGTCGTGTTCAGTTCCAGCCGGGGGCCGTATGACTATGGATCTAATTCCTTTTACCAGGAGAAAGACATGCTCTCAAACTGCAGACAAAACACCTTAGGACATAACACACAGACCTCAATCGCTCAGGATTTTAGTTCTGAGCAGGGCAGGACTGCGCCCCAGGACCAGAAAGCCAGTATCCAGATTTACCCCTGGATGCAGCGAATGAATTCGCACAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001661-0-4,0-3,0-2-3/3
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
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTGTGTGGAGCTGAGACAG
R:
CCTGAGCGATTGAGGTCTGTG
Band lengths:
258-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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