HsaINT0125426 @ hg19
Intron Retention
Gene
ENSG00000179761 | PIPOX
Description
pipecolic acid oxidase [Source:HGNC Symbol;Acc:17804]
Coordinates
chr17:27379938-27380613:+
Coord C1 exon
chr17:27379938-27380151
Coord A exon
chr17:27380152-27380430
Coord C2 exon
chr17:27380431-27380613
Length
279 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
CCCTGCTCCTGCCCTTTCAGGAT
3' ss Score
11.86
Exon sequences
Seq C1 exon
GCAGACTGGATTACTGCTGCTGGGAATGAAAGAGAATCAAGAATTAAAGACAATCCAGGCCAATCTGTCGAGGCAGAGGGTAGAACACCAGTGTCTTTCATCTGAGGAACTGAAGCAACGTTTCCCAAATATTCGGTTGCCCAGGGGAGAAGTGGGGCTCTTGGACAATTCCGGAGGAGTTATCTATGCATATAAGGCCCTCAGAGCCCTGCAG
Seq A exon
GTAATGTCGTATAGCACTGGGGCGATGCAGGTGCTCCCTGCTCTGGGTGTCCTGGGTCCCAAGCAGCCAGCCCAAGACCCCCCTCTGGATGAGGCCTTTGCCCTGCAGGCTTTAGTCTTGACTTTTCCAGCAGGGCAGTGAAATATATGCGGCTGGCCTTGTCAATACAGGACAGGTCTAGATTCTGCACTCTTTTCTGCCCCAGGCAAAAGGCTTTCTGTCCACCAGGGTGAACCACATACAGAACTAATTCACCTTTCCCTGCTCCTGCCCTTTCAG
Seq C2 exon
GATGCAATTCGACAGCTAGGAGGCATAGTGCGTGACGGAGAGAAGGTGGTGGAGATAAACCCAGGGCTACTGGTCACGGTGAAAACCACCTCCAGGAGCTACCAAGCTAAGAGCTTGGTCATCACAGCAGGTCCTTGGACCAACCAGCTCCTCCGTCCCCTGGGCATTGAGATGCCTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179761-PIPOX:NM_016518:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.007 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(19.9=100)
A:
NA
C2:
PF0126619=DAO=FE(16.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAATCCAGGCCAATCTGTCG
R:
GGACCTGCTGTGATGACCAAG
Band lengths:
299-578
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)