RnoINT0114538 @ rn6
Intron Retention
Gene
ENSRNOG00000008190 | Pnpla7
Description
patatin-like phospholipase domain containing 7 [Source:RGD Symbol;Acc:708466]
Coordinates
chr3:2258676-2259540:+
Coord C1 exon
chr3:2258676-2258792
Coord A exon
chr3:2258793-2259391
Coord C2 exon
chr3:2259392-2259540
Length
599 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
AGGCACCTTTTTCTCTGTAGCGG
3' ss Score
6.75
Exon sequences
Seq C1 exon
GCTCTCTGTGGAGGTATGTCCGTGCAAGCATGTCCTTGTCAGGCTACATGCCCCCACTCTGTGACCCCAAGGATGGACACCTGCTGATGGATGGCGGTTACATCAACAATCTCCCAG
Seq A exon
GTACTGCAGAAGACGCGGGAGTGCCCCCATGCTGGTACATAGTTCTTTGGTCATTCTGCCCTGTGGCTGTCTGCCACAACCGCCTCCATACCAGGAAGGCTGGGGTGGTACACGTTTTCCTTGGAGTATGCCAAGAGAAAATGTCAGGTTGGCATCAGCTGCTAGAGAACACAGCGCGCATGTGCCCATGCATGCGCATGCGCACAACACGCTCCTAGCATATGGCTGTGCCTGTTAGCACAGCAGCAACTTAGCAAAGGCCAAGGAGACAAACCAGGGGCAATTGATTTCCATCTGTGCCCACAGTTGGAAGCTAAGAGCCTGCAGGTGCCGAGTGTGCAGTGAGTGAGTGTGGCCACACCTACTACCTGTTGGCCACATTCTCAGAGGGGCTCCAACACAGTTCTGTGCACATGGCTGCACACAAGCTGAGATGTTTGATCTCCTGCCTCCGTGGGCCCAGGAAGGATACTAGAGAGGGTCCCCTGGTGGAGCCACCAAGAGAAACAGAAGCCCTCTCATCTGCTTTCTCCTGGAATGCTGCCCCACACCCTGGTTTCACCTGGGTGGTAGGTAACCAGGCACCTTTTTCTCTGTAG
Seq C2 exon
CGGATGTGGCAAGATCCATGGGGGCAAAGGTTGTGATTGCCATCGATGTTGGCAGCCGGGACGAGACGGACCTCACCAACTACGGTGATGCTTTGTCTGGATGGTGGCTGCTTTGGAAACGCTGGAACCCCTTGGCCACAAAAGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008190:ENSRNOT00000011633:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0173417=Patatin=FE(23.4=100)
A:
NA
C2:
PF0173417=Patatin=PD(2.4=8.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCTGTGGAGGTATGTCCGT
R:
TTGACTTTTGTGGCCAAGGGG
Band lengths:
263-862
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]