MmuEX6101366 @ mm10
Exon Skipping
Gene
ENSMUSG00000061136 | Prpf40a
Description
pre-mRNA processing factor 40A [Source:MGI Symbol;Acc:MGI:1860512]
Coordinates
chr2:53145233-53145915:-
Coord C1 exon
chr2:53145824-53145915
Coord A exon
chr2:53145620-53145736
Coord C2 exon
chr2:53145233-53145370
Length
117 bp
Sequences
Splice sites
3' ss Seq
ACAAGATTTCTGGCTTTTAGGAT
3' ss Score
7.24
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
Exon sequences
Seq C1 exon
GATCAACTGCACTTGATCTTTTCAAGTTTTATGTTGAAGATCTTAAAGCACGATATCATGATGAAAAGAAGATAATAAAAGACATTCTGAAG
Seq A exon
GATAAAGGATTTGTAGTTGAAGTAAACACTACTTTTGAAGATTTTGTGGCAATAATCAGTTCAACCAAAAGATCAACTACTTTGGATGCTGGAAATATCAAGTTGGCTTTCAATAGT
Seq C2 exon
TTACTAGAAAAGGCAGAAGCCCGTGAACGTGAGAGAGAAAAAGAAGAGGCTCGGAAAATGAAACGGAAAGAGTCTGCCTTTAAGAGTATGTTGAAACAGGCTACCCCTCCAATAGAACTGGATGCTGTCTGGGAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061136-'42-43,'42-40,44-43
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.543
Domain overlap (PFAM):
C1:
PF0184614=FF=PD(17.9=32.3)
A:
NO
C2:
PF0184614=FF=PU(46.2=52.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAACTGCACTTGATCTTTTCAA
R:
TCTTCCCAGACAGCATCCAGT
Band lengths:
227-344
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