MmuEX6015906 @ mm10
Exon Skipping
Gene
ENSMUSG00000040254 | Sema3d
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D [Source:MGI Symbol;Acc:MGI:1860118]
Coordinates
chr5:12383385-12463376:+
Coord C1 exon
chr5:12383385-12383674
Coord A exon
chr5:12447992-12448179
Coord C2 exon
chr5:12463216-12463376
Length
188 bp
Sequences
Splice sites
3' ss Seq
TTCTTTTTATCCTCATTAAGGGT
3' ss Score
7.39
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
CTTTCCTCACCACGCTCGCTGGCCTAAGCGCCAACTGGTGGGTCACTGTCCGAGAGAGAGGCGCTGCGCTCGGGGGACAGGAGCGCCCCCTGCCTTCCCGCTTGGCCGTAGCCGCGGCCTCATTGCTCTGCCAGGGCCGCCTGTGCGGGGTTCAGCCCCGGCTGCCGCTCCGAAGAACTCGCGCCTGTGCCCGCGGTCGCCATCCTCTTGGCTTCCTTGGGCTGTCCTTTCCTCTCTCCTGAGCCTGCGACGTAAGGAAAGGAAAAGCGACAAGAGTTGCTAGCAGGAAG
Seq A exon
GGTGAACTAACAGTGTTTGAAAAACAAAATTTTCATCATGAATGTTACTAAAGATGAGAACCCAAGATCCAGAAGTCAAGATCTTCACCTTTTTCATGCTTGGATGATGTTAATCATGACGGTGCTCTTTCTTCCTGTCACTGAAACGTCTAAACAAAATATTCCAAGACTCAAGCTAACCTACAAAG
Seq C2 exon
ACTTGCTGCTTTCAAACACCTGTATCCCCTTTTTGGGTTCATCAGAAGGATTGGATTTCCAGACTCTTCTTTTGGATGAGGAGAGGGGCATACTGCTCCTAGGAGCCAAAGACCATGTCTTCCTGCTCAGTCTGGTTGACTTGAACAAGAATTTTAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040254-'0-3,'0-1,4-3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.137 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0140314=Sema=PU(10.2=63.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAAGAACTCGCGCCTGTG
R:
ACCAGACTGAGCAGGAAGACA
Band lengths:
256-444
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