MmuEX6015903 @ 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
chr5:12484955-12505896:+
Coord C1 exon
chr5:12484955-12485017
Coord A exon
chr5:12497488-12497607
Coord C2 exon
chr5:12505803-12505896
Length
120 bp
Sequences
Splice sites
3' ss Seq
TTCATTTTTGTATCCTATAGGCA
3' ss Score
9.59
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
Exon sequences
Seq C1 exon
ATTTATTGGCCTGCTGCAAAAGAACGAGTGGAGCTATGTAAATTAGCTGGGAAAGATGCCAAT
Seq A exon
GCAGAATGTGCAAATTTCATCCGTGTGCTTCAACCCTATAATAAGACTCACGTTTACGTGTGTGGAACTGGAGCGTTTCATCCGCTGTGTGGGTACATTGATCTCGGCGCCAACAAGGAG
Seq C2 exon
GAACTCATATTTAAACTAGACACGCACAACCTGGAGTCTGGCAGACTGAAATGTCCCTTTGATCCTCAGCAGCCTTTTGCTTCAGTAATGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040254-'7-6,'7-5,8-6
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(4.5=100)
A:
PF0140314=Sema=FE(11.7=100)
C2:
PF0140314=Sema=FE(7.0=100)
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:
TATTGGCCTGCTGCAAAAGAAC
R:
CTGTCATTACTGAAGCAAAAGGC
Band lengths:
154-274
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