RnoEX6001060 @ rn6
Exon Skipping
Gene
ENSRNOG00000021493 | Prdm9
Description
PR/SET domain 9 [Source:RGD Symbol;Acc:1305247]
Coordinates
chr1:57552282-57553665:-
Coord C1 exon
chr1:57553542-57553665
Coord A exon
chr1:57553108-57553215
Coord C2 exon
chr1:57552282-57552331
Length
108 bp
Sequences
Splice sites
3' ss Seq
AACATCTTGCTTCTTTTCAGGTC
3' ss Score
10.83
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
Exon sequences
Seq C1 exon
GTCAAAGATGAGTTCAAAGACATTTCCATATACTTCTCCAAAGAAGAATGGGCAGAGATGGGAGAGTGGGAGAAAATTCGCTATAGAAATGTGAAAAGGAACTATAAAATGCTGATTTCTATAG
Seq A exon
GTCTCAGAGCCCCTAGACCAGCTTTCATGTGTTACCAAAGGCAGGCAATCAAGCCCCAGATAAATGACAATGAGGATTCTGATGAGGAATGGACACCAAAGCAGCAAG
Seq C2 exon
TCAGTTCTCCTTGGGTGCCTTTCCGGGTGAAGCACAGTAAACAACAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021493-'3-4,'3-3,4-4=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.568 C2=0.647
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=92.9)
A:
PF0135222=KRAB=PD(0.1=0.0)
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
TCAAAGATGAGTTCAAAGACATTTCC
R:
CTGTTGTTTACTGTGCTTCACCC
Band lengths:
170-278
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]