RnoINT0114496 @ rn6
Intron Retention
Gene
ENSRNOG00000000977 | Pnpla6
Description
patatin-like phospholipase domain containing 6 [Source:RGD Symbol;Acc:1564611]
Coordinates
chr12:2077575-2078181:+
Coord C1 exon
chr12:2077575-2077658
Coord A exon
chr12:2077659-2078071
Coord C2 exon
chr12:2078072-2078181
Length
413 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGG
5' ss Score
5.63
3' ss Seq
TGCCCCTCCTCCATGCATAGGCT
3' ss Score
8.62
Exon sequences
Seq C1 exon
GGGATCCTGTGAAGCCCACATCCTTAGAAGCGCCCTCAGCCCCCCTACTGAGCCGCTGCATCTCCATGCCAGTGGACATCTCAG
Seq A exon
GTTTGGAGCCCTGGTGGGCGGGAAGTAGAGGGTTGGTAGTGTGGGAAGGAATCTCAAGGGTCTAGATTTGAATCTAGGACATGCTGGTTTCAGGCCTGATTTTGTATCCTTACCTACAAACTGAGTGTATAGACCCTACCTCCTTGGTTCTTATTTTTTGGTGGATGTGCTCTGAGATCATTCTCCTCCCAACTGTGTTAAGAAAGATGGAGAGGCAAAGTGTGGTCATCCACTTGTCATGTCTGTCACGGGTGCAGCATTAACATGGAGTTAATATTGGTTATAGCTAGTGGTGGTTACTAACTTTTTTTTTTACTTATTTACTTTGGAGCTGGGGGTAGAAACCAGGACCTTACGGATTCTACCCAAATACTCCATCAGCTCCATCTTTCTTGCCCCTCCTCCATGCATAG
Seq C2 exon
GCTTGCAAGGTGGCCCTCGTTCTGACTTTGACATGGCCTATGAACGTGGCCGGATATCTGTTTCCCTTCAAGAAGAGGCCTCTGGAGGCCCTCAGACAGCATCCCCTAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000977:ENSRNOT00000001298:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.345 A=NA C2=0.919
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGATCCTGTGAAGCCCAC
R:
CTAGGGGATGCTGTCTGAGGG
Band lengths:
193-606
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]