RnoINT0107771 @ rn6
Intron Retention
Gene
ENSRNOG00000015294 | Paxx
Description
PAXX, non-homologous end joining factor [Source:RGD Symbol;Acc:1306215]
Coordinates
chr3:2679282-2679587:-
Coord C1 exon
chr3:2679522-2679587
Coord A exon
chr3:2679367-2679521
Coord C2 exon
chr3:2679282-2679366
Length
155 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CTGATCCTATTTTCTGGCAGAAC
3' ss Score
8.69
Exon sequences
Seq C1 exon
CCACAGAAGAGACCGCCATTAGCCCCAGGAAGAGCACCCAGCCAGCAGGCACTCAGTTCTTACCAG
Seq A exon
GTAAGGGGCAGGCCTGGCATGTGGGCTGGGGCTGCTCTTTCCCCGGAACTGCCTCTCCAGATGCCCCACGCTCTAGGGAGAATCTTTCAATGTGGATAGAGTTCTGGCCAGGGTTCTTTGGAATTCAAGATTTCCCTGATCCTATTTTCTGGCAG
Seq C2 exon
AACTTGATCACCAGAGAGGCAGCTCTGGGTCTGGGGTCAGGAGACGGTGTCCAGGGGAGTCTCTCGTCAACCCTGGTTTCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015294:ENSRNOT00000020806:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.913 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF153841=DUF4610=FE(11.2=100)
A:
NA
C2:
PF153841=DUF4610=FE(14.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAAGAGACCGCCATTAGCC
R:
TTTGAAACCAGGGTTGACGAGA
Band lengths:
146-301
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]