MmuINT1027367 @ mm10
Intron Retention
Gene
ENSMUSG00000051977 | Prdm9
Description
PR domain containing 9 [Source:MGI Symbol;Acc:MGI:2384854]
Coordinates
chr17:15557301-15557574:-
Coord C1 exon
chr17:15557547-15557574
Coord A exon
chr17:15557458-15557546
Coord C2 exon
chr17:15557301-15557457
Length
89 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAG
5' ss Score
6.66
3' ss Seq
ATATGTGACTCTAATTAAAGGAA
3' ss Score
3.98
Exon sequences
Seq C1 exon
ATACTCTACACATTAACTAAAGTCACAG
Seq A exon
GTGAAGTTTTATAAAAAGCCTTAAAGAACTACTTGAAATGCCTGTTTTTTTTTTTTTTTGTTTTTTTTAATATGTGACTCTAATTAAAG
Seq C2 exon
GAATCATCTAGAATGCCATTTAGTGGTGAATCTAATGTGAAGGAAGGGTCTGGAATAGAAAATTTGCTGAATACAAGTGGCTCAGAACACGTCCAGAAACCAGTGTCCTCCCTTGAAGAAGGAAATACCTCTGGACAGCACTCTGGGAAAAAACTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051977:ENSMUST00000147532:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.952
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF095145=SSXRD=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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