RnoINT0107772 @ rn6
Intron Retention
Gene
ENSRNOG00000015294 | Paxx
Description
PAXX, non-homologous end joining factor [Source:RGD Symbol;Acc:1306215]
Coordinates
chr3:2678956-2679366:-
Coord C1 exon
chr3:2679282-2679366
Coord A exon
chr3:2679208-2679281
Coord C2 exon
chr3:2678956-2679207
Length
74 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTT
5' ss Score
8.4
3' ss Seq
CATACTCTCTTGCCTTCTAGTAA
3' ss Score
8.41
Exon sequences
Seq C1 exon
AACTTGATCACCAGAGAGGCAGCTCTGGGTCTGGGGTCAGGAGACGGTGTCCAGGGGAGTCTCTCGTCAACCCTGGTTTCAAAAG
Seq A exon
GTACTTGCCACCTGTCTTCCCTACCCTGGTCCCTTCCTTTTCCTCTTTGCCTTACATACTCTCTTGCCTTCTAG
Seq C2 exon
TAAGAAACCAGCTGGTGGTGTAGACTTCGATGAGACCTGAAGCTAGCAAAGCCTGTGTGACCTTGCCAGGAGTCTGTCTGCAAGGAAAGGGGACATCTAGGACCCCTAACCAGAGACACCCTTTGCTTCACTTCCCCTGTGGTCCTGCTGATGGGCAAAAGTACCTCTCATCCCTTCCCCATCAAATAAACTGCTCCCTTGGGGAGAGATGCTAGGCCAGACTTGACTGGTGAAGGTTGGCCTTGGGGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015294:ENSRNOT00000020806:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF153841=DUF4610=FE(14.2=100)
A:
NA
C2:
PF153841=DUF4610=PD(5.6=78.6)
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:
TTGATCACCAGAGAGGCAGCT
R:
TCCCCTTTCCTTGCAGACAGA
Band lengths:
175-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]