MmuALTA0015643-3/3 @ mm9
Alternative 3'ss
Gene
ENSMUSG00000041199 | Rpusd1
Description
RNA pseudouridylate synthase domain containing 1 [Source:MGI Symbol;Acc:MGI:1919186]
Coordinates
chr17:25864696-25865336:+
Coord C1 exon
chr17:25864696-25864792
Coord A exon
chr17:25865126-25865196
Coord C2 exon
chr17:25865197-25865336
Length
71 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CAGGCACCCTCCTACCCCAGGCT
3' ss Score
4.81
Exon sequences
Seq C1 exon
GCGCGCCAGCCAGGCCAAGACCTGGTTCCTAGTATAGGGAAGCGAGGTTGGATGCAGAGCTGAGAATTGACATCCTGGTCCCTTGGCCCTGTTGCAG
Seq A exon
GCTCACTCCCACCTGCGTGCAGCCCCACCATGGAGCCTGGCAGCATGGAAAATCTGTCCATCGTGTACCAG
Seq C2 exon
AGCAGCGACTTCCTGGTGGTGAACAAGCACTGGGACCTGCGCATTGATAGCAAGACCTGGCGGGAGACCCTGACCCTACAGAAGCAGCTCCGACACCACTTCCCAGAGCTGGCTGACCCTGACACCTGCTATGGGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041199-0-2,0-1,0-0-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0160011=Corona_S1=PU(44.4=98.4),PF0084917=PseudoU_synth_2=PU(26.5=72.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
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:
GAAGCGAGGTTGGATGCAGAG
R:
CTCTGGGAAGTGGTGTCGGAG
Band lengths:
167-238
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: