RnoINT0107767 @ rn6
Intron Retention
Gene
ENSRNOG00000015294 | Paxx
Description
PAXX, non-homologous end joining factor [Source:RGD Symbol;Acc:1306215]
Coordinates
chr3:2680168-2680622:-
Coord C1 exon
chr3:2680300-2680622
Coord A exon
chr3:2680229-2680299
Coord C2 exon
chr3:2680168-2680228
Length
71 bp
Sequences
Splice sites
5' ss Seq
CTAGTGAGT
5' ss Score
7.43
3' ss Seq
TGACAGCCCCTCCCACCCAGTGT
3' ss Score
3.57
Exon sequences
Seq C1 exon
CCCCAGTCTGGATTCCGGAAACAACGTCAACCTTGAGTACCGCCGGTCCCTGCAGTCTTGTCCTTCCGTCCCTCTAGACACCAGAAGTTCCGCCTCTGAACGGACGTCTTAGCTTGCGAGTCACCGAGTTCATACTTCTGCGCAGGCGCCCTGAGCCTGTCTCTGGCTTGGCTCTTGCGGCGAGACCGCCCTGCTGTCATGGCTCCTCCGCCCTTGTCGCTGCCGCTTTGCATTCTGCCGCCGGGCTCCGGCTCTCCCCGCTTGGTGTGCTACTGCGAGCCGGAGAATGGTGGAGACTGGGACCGCGACGATTTCAACCTCTA
Seq A exon
GTGAGTGGAGTGTAGGGATGTGGGGTGCGGGAGCGCAGCGGGCGCAGTGTCTGACAGCCCCTCCCACCCAG
Seq C2 exon
TGTGACGGACGCCGCGGAGCTCTGGAGCACCTGCTTCTCGCCTGACAGCCTGGCGACGCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015294:ENSRNOT00000020806:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF153841=DUF4610=PU(17.3=81.0)
A:
NA
C2:
PF153841=DUF4610=FE(10.2=100)
Main Inclusion 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:
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]