MmuALTA0016217-2/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000043535 | Setx
Description
senataxin [Source:MGI Symbol;Acc:MGI:2443480]
Coordinates
chr2:29171163-29172408:+
Coord C1 exon
chr2:29171163-29171350
Coord A exon
chr2:29172242-29172315
Coord C2 exon
chr2:29172316-29172408
Length
74 bp
Sequences
Splice sites
5' ss Seq
TAGGTGGGT
5' ss Score
5.56
3' ss Seq
CCTGGTTCTGTCTCACACAGAAA
3' ss Score
8.44
Exon sequences
Seq C1 exon
AAAGCACAGGAGTATGGCTATGACCAGTCGATGATGGCCCGATTCTGCAAGCTGCTGGAAGAGAATGTGGAGCAGAACATGATTGGCAGGCTGCCGGTGTTACAGCTTACCATTCAGTACAGGATGCATCCAGACATATGTCTTTTCCCTTCTAATTACGTTTATAACAAAAACCTGAAGACAAATAG
Seq A exon
AAAATAAAAGAAGAAGATATTGATAAAATGTGTGCTTTAGAGCATATTTTCTGAATATGATTGCTTTTCTATAG
Seq C2 exon
ATTGACTGAATCCATTCGATGTTCATCAGAGTGGCCATTTCAGCCCTACCTCGTGTTTGATGTTGGAGATGGTTCAGAACGACGGGATAATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043535-54-47,54-46-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.048
Domain overlap (PFAM):
C1:
PF130861=AAA_11=PD(0.1=0.0),PF130871=AAA_12=PU(21.4=87.3)
A:
NA
C2:
PF130871=AAA_12=FE(15.3=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GCCGGTGTTACAGCTTACCAT
R:
TCCCGTCGTTCTGAACCATCT
Band lengths:
183-257
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