MmuALTD0014711-2/3 @ mm9
Alternative 5'ss
Gene
ENSMUSG00000029817 | Tra2a
Description
transformer 2 alpha homolog (Drosophila) [Source:MGI Symbol;Acc:MGI:1933972]
Coordinates
chr6:49202381-49203107:-
Coord C1 exon
chr6:49203029-49203107
Coord A exon
chr6:49202807-49203028
Coord C2 exon
chr6:49202381-49202514
Length
222 bp
Sequences
Splice sites
5' ss Seq
TAGGTTAAG
5' ss Score
-0.45
3' ss Seq
AATACTGTCTTCTTTGTTAGGAG
3' ss Score
6.9
Exon sequences
Seq C1 exon
GTTAATGTTCGTGAAGAAATTGAAGAGTTTTTTCCAAGAATGTGGAAGATAAATCAAGATAAAAGAAGGCTAATGAAAA
Seq A exon
GTATTAAAGATCAGAAAATTAAAATTGAATGGGGGAAAAAATTGAACAGAAGATTGGTCAGATAGAAGCACTTGAATATTTTTTTAAGGCTATTTTGAATTGTTTGAATTGGGGAAGAATACACGAAGTATGAAAAATGAAAAACTCAATGAAGAATGAAGAGAAGTAGAAAGCAAGAGTGAAGTAGAATTAAAAGAATCTGGAAGAATGAATGGGTCCTAG
Seq C2 exon
GAGTCTCGCTCTCAGTCAAAATCTCCAACGGGAACTCCTGCTCGTGTAAAATCAGAGAGCAGGTCAGGATCTCGTAGTCCATCACGGGTGTCCAAACATTCTGAATCCCATTCTCGATCAAGATCAAAGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029817-3-3,4-3,5-3-2/3
Average complexity
Alt5
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=1.000
Domain overlap (PFAM):
C1:
PF104084=Ufd2P_core=PD(76.0=79.2)
A:
NA
C2:
PF086487=DUF1777=FE(33.6=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTCGTGAAGAAATTGAAGAGTT
R:
ACTTTGATCTTGATCGAGAATGGGA
Band lengths:
204-426
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: