MmuEX6015899 @ 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
chr5:12541017-12553222:+
Coord C1 exon
chr5:12541017-12541131
Coord A exon
chr5:12542582-12542651
Coord C2 exon
chr5:12553078-12553222
Length
70 bp
Sequences
Splice sites
3' ss Seq
AATTATTTTTCCATTAACAGAAG
3' ss Score
7.17
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
Exon sequences
Seq C1 exon
AATGATGTAGGTGGGCAACGAAGTCTGATAAACAAATGGACAACTTTTCTAAAGGCAAGACTGATTTGCTCGATTCCTGGAAGCGATGGGGCAGATACCCATTTTGATGAACTCC
Seq A exon
AAGATATTTACTTACTCCCTACGAGAGATGAAAGAAATCCTGTAGTATATGGAGTCTTTACCACAACCAG
Seq C2 exon
CTCCATCTTCAAAGGCTCTGCTGTCTGTGTGTACAGCATGGCTGATATCCGAGCAGTCTTTAATGGTCCCTATGCTCATAAGGAAAGTGCTGACCATCGCTGGGTGCAATATGATGGAAGGATACCTTACCCCCGACCTGGAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040254-'6-15,'6-11,14-15=AN
Average complexity
A_S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.005
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(11.4=100)
A:
PF0140314=Sema=FE(5.2=100)
C2:
PF0140314=Sema=FE(10.8=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:
GTAGGTGGGCAACGAAGTCTG
R:
AGACTGCTCGGATATCAGCCA
Band lengths:
168-238
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