RnoEX0069380 @ rn6
Exon Skipping
Gene
ENSRNOG00000021493 | Prdm9
Description
PR/SET domain 9 [Source:RGD Symbol;Acc:1305247]
Coordinates
chr1:57533577-57545798:-
Coord C1 exon
chr1:57545605-57545798
Coord A exon
chr1:57542779-57542957
Coord C2 exon
chr1:57533577-57534998
Length
179 bp
Sequences
Splice sites
3' ss Seq
CTGTTTCTGACTTCCCTCAGTGA
3' ss Score
8.96
5' ss Seq
CAGGTATGG
5' ss Score
9.99
Exon sequences
Seq C1 exon
GTATGTGAACTGTGCCCGGGATGACGAAGAGCAGAACCTGGTGGCCTTTCAATATCACAGGAAAATCTTCTATCGGACCTGCCGGGTCATCAGGCCAGGTCGCGAGCTTCTGGTCTGGTATGGGGATGAGTATGGCCAAGAGCTGGGCATCAAGTGGGGAAGCAAGATGAAGAAAGGATTCACAGCAGGAAGAG
Seq A exon
TGACGGACTGTTACCTGGAAGTATGCGTTGACATAAACCGTTTCCTCTCCAAGTTGTGGAGAAGTGTTTCATCACAGCAACGGTAACCTTAACTAGGACACATGATCAACCAAAACCCACAGAGGACTTGTAAAATGAAAACTTCCTTGTAGTTCTCAATGTGGAACCCTGGGCCTCAG
Seq C2 exon
AACTAAGGACAGAGATTCATCCTTGTTTTTTGTGCTCTTTGGCCTTCTCAAGTCAGAAATTCCTCACTCAACATGTAGAATGGAATCATCGCACAGAAATCTTCCCAGGAGCATCTGCAAGGATAAATCCTAAGCCAGGAGATCCCTGTCCAGATCAGCTTCAGGAACATTTTGATTCACAGAACAAGAATGACAAAGCCAGCAATGAAGTCAAAAGAAAATCCAAACCCAGGCATAAATGGACAAGACAGAGGATTTCAACAGCCTTTTCCAGTACTCTCAAAGAACAAATGAGATCTGAGGAAAGTAAGAGAACTGTAGAAGAAGAGCTTAGAACAGGCCAGACAACAAATATAGAGGACACAGCCAAATCATTTATTGCATCAGAAACCTCAAGAATTGAAAGGCAATGTGGGCAATGTTTCAGTGATAAGTCAAATGTCAGTGAGCACCAGAGGACACACACAGGGGAGAAGCCCTACATTTGCAGGGAGTGTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021493_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.309
Domain overlap (PFAM):
C1:
PF0085623=SET=PD(49.4=62.1)
A:
NO
C2:
PF134651=zf-H2C2_2=WD(100=6.3),PF0009621=zf-C2H2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=6.3),PF134651=zf-H2C2_2=WD(100=6.3),PF134651=zf-H2C2_2=WD(100=6.3),PF134651=zf-H2C2_2=WD(100=6.3),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=6.1)
Main Inclusion Isoform:
ENSRNOT00000066370fB11288
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
GCGAGCTTCTGGTCTGGTATG
R:
TGAAGCTGATCTGGACAGGGA
Band lengths:
256-435
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]