RnoINT0107768 @ rn6
Intron Retention
Gene
ENSRNOG00000015294 | Paxx
Description
PAXX, non-homologous end joining factor [Source:RGD Symbol;Acc:1306215]
Coordinates
chr3:2679958-2680228:-
Coord C1 exon
chr3:2680168-2680228
Coord A exon
chr3:2680008-2680167
Coord C2 exon
chr3:2679958-2680007
Length
160 bp
Sequences
Splice sites
5' ss Seq
CTCGTGCGT
5' ss Score
5.63
3' ss Seq
CAATTACGTGTTTCCAACAGAAA
3' ss Score
7.5
Exon sequences
Seq C1 exon
TGTGACGGACGCCGCGGAGCTCTGGAGCACCTGCTTCTCGCCTGACAGCCTGGCGACGCTC
Seq A exon
GTGCGTAACTGCACTGGGGATAGAAGACATCTGGAAGCTTGCCACCTCCCACCCCTCCCCGTGGCAGTGGTTCTAATAGCATTTCCAAGGTTGGGCAGTTTGGAATGTCCAGTGGGTCCAGGGTCCTGGGCACTTAGTGACAATTACGTGTTTCCAACAG
Seq C2 exon
AAAGCCCGATTTGGCCTAAGTGGGACTGAGGATATCCATTCCCGGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015294:ENSRNOT00000020806:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF153841=DUF4610=FE(10.2=100)
A:
NA
C2:
PF153841=DUF4610=FE(8.1=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:
ACCTGCTTCTCGCCTGACAG
R:
TGAACCGGGAATGGATATCCTCA
Band lengths:
82-242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]