MmuALTD0012579-2/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000019647 | Sema6a
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A [Source:MGI Symbol;Acc:MGI:1203727]
Coordinates
chr18:47306356-47333326:-
Coord C1 exon
chr18:47333274-47333326
Coord A exon
chr18:47333192-47333273
Coord C2 exon
chr18:47306356-47306493
Length
82 bp
Sequences
Splice sites
5' ss Seq
TTTGTAAGT
5' ss Score
7.4
3' ss Seq
GCTCTTTTGCTCTTTGGCAGGGT
3' ss Score
7.64
Exon sequences
Seq C1 exon
TTCCCATGACTCTGGCTCCTCGGGACAATGTCTCTTTCTTCACCATGCTGATG
Seq A exon
GTAAATATCTGGTCAGCCTCATCTATTTAAAACCAGCCAAGCAGGAATCCTGATGCTGGGGAGTGGATTCTTTTATTTGTTT
Seq C2 exon
GGTGAAGTAGAGAAGCAAGTCCCCCCGCTGAACCTACTATGCGGCCAGCAGCCTTACTGCTGTGTCTCACACTGCTACACTGCGCTGGGGCTGGTTTCCCAGAAGATTCCGAGCCAATCAGTATTTCGCATGGCAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019647-1-5,2-5-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
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
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCCATGACTCTGGCTCCTC
R:
TGGCTCGGAATCTTCTGGGAA
Band lengths:
169-251
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