MmuEX0023198 @ mm10
Exon Skipping
Gene
ENSMUSG00000075394 | Hoxc4
Description
homeobox C4 [Source:MGI Symbol;Acc:MGI:96195]
Coordinates
chr15:103033967-103036405:+
Coord C1 exon
chr15:103033967-103035161
Coord A exon
chr15:103035267-103035315
Coord C2 exon
chr15:103035637-103036405
Length
49 bp
Sequences
Splice sites
3' ss Seq
CCTTCCCCCTCTCTCTCCAGGAG
3' ss Score
13.7
5' ss Seq
TGGGTAATT
5' ss Score
6.19
Exon sequences
Seq C1 exon
AGGGCTTTATGGAGCAGAAAAACGACAAAGCGAGAAAAATTATTTTCCACTCCAGAAATTAATGATCATGAGCTCGTATTTGATGGACTCTAACTACATCGATCCGAAATTTCCTCCATGCGAAGAATATTCGCAAAATAGCTACATCCCTGAACACAGTCCGGAATATTACGGCCGGACCAGGGAATCGGGATTCCAGCATCACCACCAGGAGCTGTACCCACCACCGCCTCCGCGCCCTAGCTACCCTGAGCGTCAGTATAGCTGCACCAGTCTCCAGGGGCCTGGCAATTCGCGAGCCCACGGGCCGGCCCAGGCGGGCCACCACCACCCTGAGAAATCGCAGCCGCTCTGCGAGCCGGCGCCTCTCTCAGGCACCTCTGCCTCCCCGTCCCCAGCCCCGCCAGCCTGCAGCCAGCCAGCCCCTGACCATCCCTCCAGCGCCGCCAGCAAGCAACCCATAGTCTACCCTTGGATGAAAAAAATTCACGTTAGCACGG
Seq A exon
GAGCGACTCTGGGTTAGCACAATTGAACTGGATTTACGAGCGAGAATGG
Seq C2 exon
TGAACCCCAATTATAACGGAGGGGAGCCCAAGCGCTCGAGGACAGCCTACACCCGGCAGCAGGTCCTGGAATTAGAGAAAGAGTTTCATTACAACCGCTACCTGACCCGAAGGAGAAGGATCGAGATCGCCCACTCGCTGTGCCTCTCTGAGAGGCAGATCAAAATCTGGTTCCAAAACCGTCGTATGAAATGGAAGAAGGACCACCGACTCCCCAACACCAAAGTGAGGTCAGCGCCCCCGGCCGGCGCTGCGCCCAGCACCCTCTCGGCAGCCACCCCCGGCACTTCTGAAGACCACTCCCAGAGCGCCACGCCGCCGGAGCAGCAACGGGCAGAGGACATCACCAGGTTATAAGACATAACTTACACCCCTGCCCCCACCCTGTGCTCCGTGCCCCCCTCACACACAAATTGACTCTTATTTATAGAATTTAATATATATATATATATTTTGGTTCTTTTCTCTCTCTTCCTCTTGCCTCCTCCCTTGTCAGTTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075394_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.812 A=1.000 C2=0.669
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0004624=Homeobox=WD(100=47.9)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAGCAAGCAACCCATAGTC
R:
CTCTAATTCCAGGACCTGCTGC
Band lengths:
132-181
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