HsaINT0128564 @ hg19
Intron Retention
Gene
ENSG00000032444 | PNPLA6
Description
patatin-like phospholipase domain containing 6 [Source:HGNC Symbol;Acc:16268]
Coordinates
chr19:7607447-7607814:+
Coord C1 exon
chr19:7607447-7607556
Coord A exon
chr19:7607557-7607646
Coord C2 exon
chr19:7607647-7607814
Length
90 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
CACAAGCCTGCCCCACTCAGACC
3' ss Score
2.4
Exon sequences
Seq C1 exon
GCTTGCAGGGTGGCCCCCGCTCCGACTTCGACATGGCCTATGAGCGTGGCCGGATCTCCGTGTCCCTGCAGGAAGAGGCCTCCGGGGGGTCCCTGGCAGCCCCCGCTCGG
Seq A exon
GTAAGGCTTGGGACCCTGCCCGGTGGTGGAGCCCGCAGGGGAAGGTGGCTGGGAGGGAGCATCAGGAGGTCACAAGCCTGCCCCACTCAG
Seq C2 exon
ACCCCCACTCAGGAGCCTCGTGAGCAGCCGGCAGGCGCCTGTGAATACAGCTACTGTGAGGATGAGTCGGCCACTGGTGGCTGCCCTTTCGGGCCCTACCAGGGCCGCCAGACCAGCAGCATCTTCGAGGCAGCAAAGCAGGAGCTGGCCAAGCTGATGCGGATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000032444-PNPLA6:NM_001166114:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.357
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0002724=cNMP_binding=PU(1.3=1.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCGACTTCGACATGGCCTA
R:
CAGTGGCCGACTCATCCTCA
Band lengths:
167-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)