RnoINT0114503 @ rn6
Intron Retention
Gene
ENSRNOG00000000977 | Pnpla6
Description
patatin-like phospholipase domain containing 6 [Source:RGD Symbol;Acc:1564611]
Coordinates
chr12:2085713-2086079:+
Coord C1 exon
chr12:2085713-2085826
Coord A exon
chr12:2085827-2086003
Coord C2 exon
chr12:2086004-2086079
Length
177 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAT
5' ss Score
6.6
3' ss Seq
TCCCCAACCCTCTGCCTTAGGTC
3' ss Score
8.55
Exon sequences
Seq C1 exon
GTGGAGGCATTGACCCGGCAGCCACGGGCCACCACTGTACACGCTGTGCGAGACACAGAGCTGGCCAAGCTCCCCGAGGGCACCTTAGGTCACATCAAACGTCGGTACCCACAG
Seq A exon
GTGAATCTTCTGATTAGCGACCACAGGGCAGGGCCTCCCGTGTGCCAGGCTGCCCTAGTCGGGGGGTGCAGCCCAAGTAACGGAATTTCTAGCCTTTCAGGTGAAGGAAACAAAAGATGGGACCTTTCAGTCTCAATGAACACTGTTCTCTTTCTCTTCCCCAACCCTCTGCCTTAG
Seq C2 exon
GTCGTGACTCGCCTTATTCATCTGCTAAGCCAGAAAATTCTGGGCAATCTGCAGCAGTTGCAAGGACCCTTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000977:ENSRNOT00000001298:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.105 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=FE(40.7=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGAGGCATTGACCCGG
R:
GAAAGGGTCCTTGCAACTGCT
Band lengths:
187-364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]