HsaINT0125428 @ hg19
Intron Retention
Gene
ENSG00000179761 | PIPOX
Description
pipecolic acid oxidase [Source:HGNC Symbol;Acc:17804]
Coordinates
chr17:27381563-27382239:+
Coord C1 exon
chr17:27381563-27381709
Coord A exon
chr17:27381710-27382080
Coord C2 exon
chr17:27382081-27382239
Length
371 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCACTCTGATTGGGAGCCAGGTC
3' ss Score
0.23
Exon sequences
Seq C1 exon
ACCCTGCGGATCAACGTGTGTTACTGGCGAGAGATGGTTCCTGGGAGCTATGGTGTGTCCCAGGCCTTTCCGTGCTTCCTGTGGCTGGGCTTGTGTCCCCACCACATCTACGGACTGCCCACAGGAGAGTACCCAGGGCTGATGAAG
Seq A exon
GTGAGCGGAAAGACCGAGATAAGGCAGGTAGATGCCAGTGCAGATTAGGGGAAGCTGCTCTAACTTTCCCCTCCATAGATGCCCTTGGGTCTCGGGGCCAGCAGCAGGAGCCTGCTTCACTCATGGCGATTTGCAAGGAAAGACCCTCAGCTGCCCTGAGGCCCAGCAAAAGGAGCCCTTCCTTTGCAAACATAGGGTGGTTGCAGGGACCAACAGCTAAGCAGCCTCAGGTGACAGCCCACAGCACCTGCCAGGAGTGGGGAAGGCTGGAATGATGGATGGGGCTGTCCTGTGTACACGCCTGCCCTTCGGCTGTGGGTGTGTGTGGAAGGCCAGCCCTCACCACTCATGCCACTCTGATTGGGAGCCAG
Seq C2 exon
GTCAGCTATCACCACGGCAACCACGCAGACCCTGAGGAGCGGGACTGCCCCACAGCACGCACAGACATCGGAGACGTCCAGATCCTGAGCAGCTTTGTCAGAGATCACTTACCTGATCTGAAGCCCGAGCCTGCTGTCATTGAGAGCTGCATGTACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179761-PIPOX:NM_016518:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.189
Domain overlap (PFAM):
C1:
PF0126619=DAO=PD(21.7=87.8)
A:
NA
C2:
PF0126619=DAO=FE(14.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGCGGATCAACGTGTGTTA
R:
CGTGTACATGCAGCTCTCAATG
Band lengths:
304-675
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)