HsaINT0125430 @ hg19
Intron Retention
Gene
ENSG00000179761 | PIPOX
Description
pipecolic acid oxidase [Source:HGNC Symbol;Acc:17804]
Coordinates
chr17:27382831-27384236:+
Coord C1 exon
chr17:27382831-27382906
Coord A exon
chr17:27382907-27383192
Coord C2 exon
chr17:27383193-27384236
Length
286 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GTCTGCTCTTCCCTTCCTAGGGC
3' ss Score
12.15
Exon sequences
Seq C1 exon
AATACCCCTGATGAGCAGTTCATTCTCGATCGCCACCCAAAGTATGACAACATTGTCATTGGTGCTGGATTCTCTG
Seq A exon
GTGAGTCTGAGCTGGGGGGAATGGGGTGCCTTAAAGCTGACCTACCTCAGTGCCAGGTGAAATGGTATTTTCCACACTCTTAGCTGCCCAGATAGGTGTGAAGCCTGGACATTGTAGGTATAAGGAGGCTGGGCAGTCAGAAAAGGGGTATTCATGGTGGGAGGCCACTTCTGGCTTTGGGATGTGACCAGGAGGACAGTCAGCCCTGTCTGGGTAAGTAGGGGATGTCCAGAGAGCTCAACCTCTGTCTGTGAAGCTGCCTGAGAGTCTGCTCTTCCCTTCCTAG
Seq C2 exon
GGCACGGGTTCAAGCTGGCCCCTGTGGTGGGGAAGATCCTGTATGAATTAAGCATGAAATTAACACCATCTTATGACTTGGCACCTTTTCGAATCAGCCGTTTCCCAAGCCTGGGCAAAGCCCACCTTTGACCTCTGGCCAGAAGCCTCCCTTCTGTGCACAGGAGCCAGTTTCACAGATGGAGAAGATGTCTCAGATGAAGGGAGTGTCCCTGAGATATCATCCTTTTCTTCTGCCTCGCCTGAATCCCCCATAAACACCAGATGATTGAGTCTACCTTCTTTCCTTGGCCCGCTCCCTTTTTCTTCTGCCTCACTTGAATCCCCCGTAAACACCAGACGATTGAGTCTACCTTCTTTTCTTGGCCACCTCCCCATTCACAACTACTTTCTCGCTCCCAGAAGGTTGATCAGATATTCTACAATCACAGAGTAGCAAGGACGTTTGAGATGGGTATATCAGTAAGAAGAGGGCACAAGAACTGGCTCTGGAGACCAAAGCAGTTGTTAAAAATTCTCTTTGCTGGGGGCCGGGTGTGGTGGCTCACACCTGTAATCTCGGCACTTTGGGGGGCTGAGACAGGCGGATCACCTGAGGCCAGGAATTCAAGACCAGCCTGGCCAACATGGTGAAACCCTATCTCCACTAAAAATACAAAATTAGCTGGGTGTGGTGGCGCATGCCTGTAATCCCAGCTACTTGGGAGACTGAGGCAAGAGAATCACTTGAACCCGGGAGGTGGAGGTGGCAGTGAGCCGAGATTGCGCCATTGCACTCCAGCCTGGGCAAAAAGAGTGAGACTCTGTCTCAAAAAAAAAACAAAACAAAAAAAACCTCTTTGCTGGTATATTTGAAGAGCTTGGGATGGATTTGACTAAATCTGCCCCGAGGAGGGTGAACAAGGTGATCTCAGAGATCACTACTGCTCTTGGAGTTCCTTCTCCTAAAGCTAAGGCCAGCCTCCATCACAAATGCCCATAAAATCTGGCTCGTCTTTGATGAACAATAAATATTTGTTGAACAAATAAATAACTGCCCTGCATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179761-PIPOX:NM_016518:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(7.0=100)
A:
NA
C2:
PF0126619=DAO=PD(4.5=36.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CATTCTCGATCGCCACCCAAA
R:
GGCGAGGCAGAAGAAAAGGAT
Band lengths:
298-584
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)