GgaINT1021667 @ galGal4
Intron Retention
Gene
ENSGALG00000026392 | PIPOX
Description
pipecolic acid oxidase [Source:HGNC Symbol;Acc:HGNC:17804]
Coordinates
chr19:5927931-5928202:+
Coord C1 exon
chr19:5927931-5928006
Coord A exon
chr19:5928007-5928071
Coord C2 exon
chr19:5928072-5928202
Length
65 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
3' ss Seq
CAACCCTCTCTTCCCCGCAGGCC
3' ss Score
12.42
Exon sequences
Seq C1 exon
AACACCCCGGATGAAGACTTCATTCTGGACCGGCACCCCAAGTACAGCAACATCATCATTGGGGCCGGCTTCTCGG
Seq A exon
GTAGGTCCTGGCCTCCCTGGGGTACCCTGGGCATGGCTGTACCCCCAACCCTCTCTTCCCCGCAG
Seq C2 exon
GCCATGGGTTCAAACTGGCCCCAGTGGTGGGGCAGCTGCTGTGTGAGCTGAGCCTGGGTGAGGAGCCGTCCCACCGCATGGCCCCATTCGCTATCAGCCGCTTCCCAGGTGTGCTCCGTGCTGCTCTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026392:ENSGALT00000045943:7
Average complexity
IR
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(7.1=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
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACCCCGGATGAAGACTTCA
R:
CTGATAGCGAATGGGGCCATG
Band lengths:
172-237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]