MmuALTD0000127-3/3 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000044320 | 1700001O22Rik
Description
RIKEN cDNA 1700001O22 gene [Source:MGI Symbol;Acc:MGI:1923631]
Coordinates
chr2:30797868-30800816:-
Coord C1 exon
chr2:30800755-30800816
Coord A exon
chr2:30800708-30800754
Coord C2 exon
chr2:30797868-30797980
Length
47 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
GGACAAACCATTGCACTGGGACAACAATTTTAAAGAGAAGACTACCCTGGGGCTCCCAAGAG
Seq A exon
GTGAACTTGCCAGAGCCAAAAAGGCCCATCCGTGAGTAGTAGCTGTT
Seq C2 exon
CCCCGCTGGAGAAGGCTCAAGACCCCGAAAACGCTATTGTCCCTTCCGGGTACGATTCGCAGACGAGACCCTGCAGGACACAGCACTCCGGTACTGGGAACGCAACCGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044320-3-6,4-6,5-6-3/3
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=0.578 A=NA C2=0.231
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
CACGGTTGCGTTCCCAGTAC
Band lengths:
140-187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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