MmuEX0037002 @ mm10
Exon Skipping
Gene
ENSMUSG00000051977 | Prdm9
Description
PR domain containing 9 [Source:MGI Symbol;Acc:MGI:2384854]
Coordinates
chr17:15555566-15559072:-
Coord C1 exon
chr17:15559023-15559072
Coord A exon
chr17:15557301-15557457
Coord C2 exon
chr17:15555566-15555667
Length
157 bp
Sequences
Splice sites
3' ss Seq
ATATGTGACTCTAATTAAAGGAA
3' ss Score
3.98
5' ss Seq
TGAGTAAGA
5' ss Score
5.11
Exon sequences
Seq C1 exon
TCAGTCCTCCTTGGGTGCCTTTCCGGGTGAAGCACAGTAAACAGCAGAAG
Seq A exon
GAATCATCTAGAATGCCATTTAGTGGTGAATCTAATGTGAAGGAAGGGTCTGGAATAGAAAATTTGCTGAATACAAGTGGCTCAGAACACGTCCAGAAACCAGTGTCCTCCCTTGAAGAAGGAAATACCTCTGGACAGCACTCTGGGAAAAAACTGA
Seq C2 exon
AACTTAGGAAAAAGAACGTTGAAGTGAAAATGTACAGGCTGCGAGAGAGAAAGGGCCTTGCCTATGAGGAGGTCAGCGAGCCTCAGGATGATGACTATCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051977-'6-12,'6-9,9-12=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.353 A=0.952 C2=0.200
Domain overlap (PFAM):
C1:
NO
A:
PF095145=SSXRD=PU(0.1=0.0)
C2:
PF095145=SSXRD=WD(100=94.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
CAGTCCTCCTTGGGTGCCTTT
R:
TAGTCATCATCCTGAGGCTCGC
Band lengths:
146-303
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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