RnoINT0114493 @ rn6
Intron Retention
Gene
ENSRNOG00000000977 | Pnpla6
Description
patatin-like phospholipase domain containing 6 [Source:RGD Symbol;Acc:1564611]
Coordinates
chr12:2069959-2070158:+
Coord C1 exon
chr12:2069959-2069979
Coord A exon
chr12:2069980-2070089
Coord C2 exon
chr12:2070090-2070158
Length
110 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCT
5' ss Score
7.56
3' ss Seq
TTCTGCTCCTCGATTTCCAGGAC
3' ss Score
9.34
Exon sequences
Seq C1 exon
ATGGAGTCACTCCTGCCAAAG
Seq A exon
GTATCTAGGGGGCGTGGCTTTTGAGACGAGATAGGGGAAGAGCTTGTGGTCAGGGCTGGGTAGGTTTGATTGACATCTTCTTCTGGTCCCTTCTGCTCCTCGATTTCCAG
Seq C2 exon
GACTGCAGGCTACCAGACCTGCTCCCTAGTCCGAAACAATCAATGGAGGCCCCACTGCAAACCGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000977:ENSRNOT00000001298:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.217
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GGAGTCACTCCTGCCAAAG
R:
CATTCCGGTTTGCAGTGGGG
Band lengths:
88-198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]