GgaINT1022875 @ galGal4
Intron Retention
Gene
ENSGALG00000028529 | PTGDS
Description
prostaglandin-H2 D-isomerase precursor [Source:RefSeq peptide;Acc:NP_989590]
Coordinates
chr17:509575-509942:-
Coord C1 exon
chr17:509829-509942
Coord A exon
chr17:509677-509828
Coord C2 exon
chr17:509575-509676
Length
152 bp
Sequences
Splice sites
5' ss Seq
ACAGTACGT
5' ss Score
7.54
3' ss Seq
TCACCCTGCTCTTTCCGCAGGCC
3' ss Score
12.51
Exon sequences
Seq C1 exon
GCTGGGGCAGCAACCATGACATCCGTGTGGTGGAGACCAACTATGACGAGTATGCCCTGGTGGCCACCCAGATCTCCAAGAGCACCGGCTCCTCCAACATGGTGCTGCTCTACA
Seq A exon
GTACGTCCTCACGCTGCCCTTGCGCTGCTCAGACCCCCAGGCTTTCCTCAGAGGGGATCTGTCCTGCAGGAGGGGGTCATGGGACAGCACCTCCAGGCCGGGTCCCCCTCCCCTGGCTCCCTGGGGCTGCCCTCACCCTGCTCTTTCCGCAG
Seq C2 exon
GCCGCACCAAGGAGGTTGCACCCCAGCGCCTGGAGAGGTTCATGCAGTTCTCCCAGGAGCAGGGCCTGAAGGACGAGGAGATCCTCATCCTACCCCAGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028529:ENSGALT00000014675:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.086
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=FE(26.6=100)
A:
NA
C2:
PF0006118=Lipocalin=FE(23.8=100)
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:
GGGCAGCAACCATGACATCC
R:
CGTCTGGGGTAGGATGAGGAT
Band lengths:
211-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]