MmuALTD0000127-2/2 @ mm9
Alternative 5'ss
Gene
ENSMUSG00000044320 | 1700001O22Rik
Description
RIKEN cDNA 1700001O22 gene [Source:MGI Symbol;Acc:MGI:1923631]
Coordinates
chr2:30653388-30656336:-
Coord C1 exon
chr2:30656244-30656336
Coord A exon
chr2:30656228-30656243
Coord C2 exon
chr2:30653388-30653500
Length
16 bp
Sequences
Splice sites
5' ss Seq
GTTGTGAGT
5' ss Score
6.59
3' ss Seq
AAGACTGTGCTCATTTGCAGCCC
3' ss Score
6.68
Exon sequences
Seq C1 exon
GGACAAACCATTGCACTGGGACAACAATTTTAAAGAGAAGACTACCCTGGGGCTCCCAAGAGGTGAACTTGCCAGAGCCAAAAAGGCCCATCC
Seq A exon
GTGAGTAGTAGCTGTT
Seq C2 exon
CCCCGCTGGAGAAGGCTCAAGACCCCGAAAACGCTATTGTCCCTTCCGGGTACGATTCGCAGACGAGACCCTGCAGGACACAGCACTCCGGTACTGGGAACGCAACCGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044320-3-5,4-5-2/2
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=0.578 A=NA C2=0.231
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
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:
AAGAGAAGACTACCCTGGGGC
R:
GGACAATAGCGTTTTCGGGGT
Band lengths:
103-119
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: