MmuALTD0012563-2/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000057969 | Sema3b
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B [Source:MGI Symbol;Acc:MGI:107561]
Coordinates
chr9:107605447-107606656:-
Coord C1 exon
chr9:107606556-107606656
Coord A exon
chr9:107606550-107606555
Coord C2 exon
chr9:107605447-107605587
Length
6 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
CTCCACCCACTCTCCTGCAGCAA
3' ss Score
7.86
Exon sequences
Seq C1 exon
AGGACAAGAGGGGTCAAGGTGGGAGACCCCTGTCAGAGTTCTTGGTGGAGTGTGGGAAGGCAGCCTTGTCAGCCTCACAGACTTCTAGTACCTGAGAAAAG
Seq A exon
GTGCAG
Seq C2 exon
CAACTGCTTTGCTCTTTGCACTTGGTGCCCTCTGGAATGACCACAGGATCTGACTCTCATCTGTCGGCTCTTCGCCCTTTACTGCCTGGGGACCTTGTCCGCATCATCAGTATCCTTGTCTCTGCCCCAGGCTGGCATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057969-5-10,6-10-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
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:
AGTTCTTGGTGGAGTGTGGGA
R:
GGTCATTCCAGAGGGCACCAA
Band lengths:
107-113
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