MmuALTA0016106-1/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000027200 | Sema6d
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D [Source:MGI Symbol;Acc:MGI:2387661]
Coordinates
chr2:124659807-124660344:+
Coord C1 exon
chr2:124659807-124659884
Coord A exon
NA
Coord C2 exon
chr2:124660283-124660344
Length
0 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
TTTGCTTTCCATAACCACAGCCC
3' ss Score
7.37
Exon sequences
Seq C1 exon
GTCTTGCATTGCATCACGTGACCCGTACTGTGGTTGGTTAAGCCAGGGAGTTTGTGAGAGAGTGACCCTAGGGATGCT
Seq A exon
NA
Seq C2 exon
CCCTGGAGGATATGAGCAGGACACGGAGTACGGCAACACAGCCCACCTAGGGGACTGCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027200-48-50,48-49-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.086
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(33.8=100)
A:
NA
C2:
PF0143720=PSI=FE(31.3=100)
Other Inclusion Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGCATTGCATCACGTGACC
R:
GTGTTGCCGTACTCCGTGTC
Band lengths:
115-154
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