RnoEX6001061 @ rn6
Exon Skipping
Gene
ENSRNOG00000021493 | Prdm9
Description
PR/SET domain 9 [Source:RGD Symbol;Acc:1305247]
Coordinates
chr1:57548963-57553215:-
Coord C1 exon
chr1:57553108-57553215
Coord A exon
chr1:57552282-57552331
Coord C2 exon
chr1:57548963-57549119
Length
50 bp
Sequences
Splice sites
3' ss Seq
TTCCCATACCTTTTTTTCAGTCA
3' ss Score
8.04
5' ss Seq
AAGGTAAGT
5' ss Score
11
Exon sequences
Seq C1 exon
GTCTCAGAGCCCCTAGACCAGCTTTCATGTGTTACCAAAGGCAGGCAATCAAGCCCCAGATAAATGACAATGAGGATTCTGATGAGGAATGGACACCAAAGCAGCAAG
Seq A exon
TCAGTTCTCCTTGGGTGCCTTTCCGGGTGAAGCACAGTAAACAACAGAAG
Seq C2 exon
GAAACACCCAGAATGCCATTAAGTGATAAATCTAGTGTGAAGGAAGTATTTGGAATAGAAAATTTGCTGAACACAAGTGGCTCAGAGCATGCCCAGAAACCAGTGTGCTCCCCTGAAGAAGGGAATACCTCCGGACAGCACTTTGGAAAAAAACTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021493-'4-6,'4-4,5-6=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=0.568 A=0.647 C2=0.660
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NO
C2:
PF095145=SSXRD=PU(0.1=0.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
AGGAATGGACACCAAAGCAGC
R:
CTTCTTCAGGGGAGCACACTG
Band lengths:
145-195
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]