MmuALTD0012580-3/3 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000038777 | Sema6c
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C [Source:MGI Symbol;Acc:MGI:1338032]
Coordinates
chr3:95160598-95164542:+
Coord C1 exon
chr3:95160598-95160698
Coord A exon
chr3:95160699-95160712
Coord C2 exon
chr3:95164339-95164542
Length
14 bp
Sequences
Splice sites
5' ss Seq
GGGGTAGGG
5' ss Score
3.94
3' ss Seq
TTTCTGTCTCCTTACTCCAGGGC
3' ss Score
10.53
Exon sequences
Seq C1 exon
TCACATCTTGCCGAAGCCCCAACCACGGATTGCGAACTCTGCGAGGCGCGGAGCTAGGGGCCGCCTGCTGCTCCCTGGACCTTGCTGACCCGGATCTCGGA
Seq A exon
GCAAGTACCTTGGG
Seq C2 exon
GGCCGGCACATGGGTGAGGGGGTACCCCCTGGGGCGTGAGCTGCCCCGCACAGGATGCCCCGTGCCCCCCACTCCATGCCCCTGCTGCTCCTGCTGCTGTTGCTGTCATCGCTCCCCCAAGCCCAGGCTGCCTTTCCCCAGGACCCCACCCCTCTGTTGACCTCTGACCTTCAAGGTGAGTGCTCCACCCACTTTGCCCACTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038777-0-9,1-9,2-9-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.106
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCACGGATTGCGAACTCTG
R:
GGTACCCCCTCACCCATGTG
Band lengths:
107-121
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