MmuEX6016004 @ mm10
Exon Skipping
Gene
ENSMUSG00000028780 | Sema3c
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3C [Source:MGI Symbol;Acc:MGI:107557]
Coordinates
chr5:17714411-17721921:+
Coord C1 exon
chr5:17714411-17714452
Coord A exon
chr5:17716911-17717068
Coord C2 exon
chr5:17721854-17721921
Length
158 bp
Sequences
Splice sites
3' ss Seq
CATCATGGTTCTTCTTATAGCAA
3' ss Score
7.35
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
Exon sequences
Seq C1 exon
AATCATGTTCCCATAACAACAATGAAAATCTCATCCAAAAAG
Seq A exon
CAACAGTTGTACGTGAGCTCCAATGAGGGGGTTTCCCAAGTCTCTCTGCATCGCTGCCATATCTACGGCACAGCCTGTGCGGACTGCTGCTTGGCGAGGGATCCATACTGTGCCTGGGATGGCCACTCTTGCTCTAGGTTCTACCCCACTGGGAAGCG
Seq C2 exon
GAGGAGCCGAAGACAAGATGTGAGACATGGAAACCCACTGACACAATGCCGAGGGTTCAATCTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028780-'17-27,'17-23,23-27=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=0.292
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(2.9=100)
A:
PF0143720=PSI=PU(66.0=66.0)
C2:
PF0143720=PSI=PD(32.1=70.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTCCCATAACAACAATGAAAATCT
R:
ATTGAACCCTCGGCATTGTGT
Band lengths:
98-256
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