RnoINT0107769 @ rn6
Intron Retention
Gene
ENSRNOG00000015294 | Paxx
Description
PAXX, non-homologous end joining factor [Source:RGD Symbol;Acc:1306215]
Coordinates
chr3:2679680-2680007:-
Coord C1 exon
chr3:2679958-2680007
Coord A exon
chr3:2679871-2679957
Coord C2 exon
chr3:2679680-2679870
Length
87 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
ACACACATCTCCCTCCTTAGGGC
3' ss Score
9.27
Exon sequences
Seq C1 exon
AAAGCCCGATTTGGCCTAAGTGGGACTGAGGATATCCATTCCCGGTTCAG
Seq A exon
GTAAGTTCCAGTTAGGGAGGCCACGTGAATGAGGAGCTTGGGGTAGTGATAGCACATGGTGGCCATAACACACATCTCCCTCCTTAG
Seq C2 exon
GGCAGCCTGCCAACAGCAGGCAGTGACTGTAAGACTGCAAGAGGACAGAGCATTGATGACCCTTTCAGGGGATACCTCTGCCCTGGCCTTTGACCTCTCCAAGGTGCCCAGCCCAGAGGCAGCCCCCAGGCTGCAGGCTTTGACTCTCAGCCTGGCAGAGCATGTATGCAACCTGGAGAGGCGGCTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015294:ENSRNOT00000020806:3
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=0.077
Domain overlap (PFAM):
C1:
PF153841=DUF4610=FE(8.1=100)
A:
NA
C2:
PF153841=DUF4610=FE(32.5=100)
Main Inclusion 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:
ACTGAGGATATCCATTCCCGGT
R:
CAGGCTGAGAGTCAAAGCCTG
Band lengths:
180-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]