MmuEX0041644 @ mm10
Exon Skipping
Gene
ENSMUSG00000027200 | Sema6d
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D [Source:MGI Symbol;Acc:MGI:2387661]
Coordinates
chr2:124610296-124654258:+
Coord C1 exon
chr2:124610296-124611060
Coord A exon
chr2:124653581-124653743
Coord C2 exon
chr2:124654147-124654258
Length
163 bp
Sequences
Splice sites
3' ss Seq
ATAATGCTTTTGTCTTCTAGGTA
3' ss Score
10.43
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
CCCCTAAGGGAAGAAAAGACACCCTGGGCTGCGAGGAAAAGTTTCTTCTTGGCAGGGCCGGCTCGGCGCCGCTCCGCAAGCCGTCAGGGTGAGCCCGCCTTCCTCGCTGCGGGGCTTGGAGCCTCCAGCCCGCCCGCAGCGCAGCCCGGGCCGCCGGGCCAGCTTCGGCCGGGAGAACGCAGGGACAGCCTGGGAGTGCGGAGCCACTGACTGTCCACGCGGGGACCGTGAGCACCCACTCGCGGGTCTCCCAGCCACTCTCCCCCGCAACTTTGCGTGCTTTGTTCTCTGGCTGAAAAAATGCTCCACAGAAGCGCCATAGACCGGGTCTCCTCCAGGCGGCAAGGGCTCGGCCGGGAGACGTGTTACGCTCTCAGCTCCCCATCAATTATGGATGGAAACAAATAAGGAAAAGTCAATTTTGTATGAGCCGCGTCTTTCGCAGCCAGAGGCGTCTTGTAGCCTGGAGCAGAGGCAGGCAAACCGAGCCCAACAACCAG
Seq A exon
GTAGCTAAGTGGGACTTCTGAGGAGGGGGAGCTCAGATTTCTTCTTGGCCAACCATGGGGTTCCTTCTGCTTTGGTTCTGCGTGCTGTTCCTTCTGGTCTCCAGGTTACGGGCGGTCAGCTTCCCAGAAGACGATGAGCCCCTCAACACGGTTGACTATCACT
Seq C2 exon
ATTCAAGGCAATATCCGGTTTTTAGAGGACGCCCTTCAGGCAACGAATCGCAGCACAGGCTGGACTTTCAGCTGATGTTGAAAATTCGAGACACACTTTATATTGCTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027200-'21-36,'21-25,32-36=AN
Average complexity
A_C1
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0140314=Sema=PU(3.8=42.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGCTTTGTTCTCTGGCTGA
R:
GGCGTCCTCTAAAAACCGGAT
Band lengths:
258-421
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