MmuALTD0011074-2/4 @ mm9
Alternative 5'ss
Gene
ENSMUSG00000061136 | Prpf40a
Description
PRP40 pre-mRNA processing factor 40 homolog A (yeast) [Source:MGI Symbol;Acc:MGI:1860512]
Coordinates
chr2:53049003-53050283:-
Coord C1 exon
chr2:53050183-53050283
Coord A exon
chr2:53050057-53050182
Coord C2 exon
chr2:53049003-53049134
Length
126 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGG
5' ss Score
10.48
3' ss Seq
CCCTTTTTATTATTTTTCAGATG
3' ss Score
12.29
Exon sequences
Seq C1 exon
GATCGCTTCTTGTTGGTATGTGCAGCGGCAGTGGCCGCCGACGGAGCAGTCTGAGCCCGACGATGAGGCCGGGGACTGGAGCCGAGCGTGGAGGCCTCATG
Seq A exon
GTGAGTGAAATGGAGAGCCAACCTCCCTCGCGGGGTCCCGGGGACGGGGAGCGGAGATTGTCCGGCTCAAACCTGTGCTCCAGTTCTTGGGTCTCTGCTGACGGCTTCCTGAGGAGACGGCCCTCG
Seq C2 exon
ATGGGGCATCCTGGCATGCATTATGCACCAATGGGCATGCACCCTATGGGTCAGAGAGCAAACATGCCTCCTGTACCTCATGGAATGATGCCACAGATGATGCCCCCTATGGGAGGGCCTCCAATGGGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061136-0-0,1-0,2-0,3-0-2/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.927 A=NA C2=0.949
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TCTTGTTGGTATGTGCAGCGG
R:
TTGTCCCATTGGAGGCCCTC
Band lengths:
226-352
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: