GgaINT1022872 @ galGal4
Intron Retention
Gene
ENSGALG00000028529 | PTGDS
Description
prostaglandin-H2 D-isomerase precursor [Source:RefSeq peptide;Acc:NP_989590]
Coordinates
chr17:510258-511024:-
Coord C1 exon
chr17:510911-511024
Coord A exon
chr17:510398-510910
Coord C2 exon
chr17:510258-510397
Length
513 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATC
5' ss Score
4.41
3' ss Seq
TGAGCAGAGTTTGTGTGCAGCTT
3' ss Score
-1.74
Exon sequences
Seq C1 exon
TGCTCGGCTGGGGACATGCAAGCCATGCTGCTCAGCATCCTGGGGCTGGCCCTGCTTGGGGCTCTGCACGCGCAGAACAGCATTCCTGTGCAAGCTGACTTCCAGCAGGACAAG
Seq A exon
GTGATCGAGCCTGGCCAGCCTTGCTGCGTGGGGCAGGGGTGTGTGGGGTGCTCATCTCCCCAGAAATGTGCAGCAAGGGGGGTACTGGTGGGCTGGGGGCCCTGCTGCCCTGGGAACAGGGAGAAGGGGGCGCCCATTGCATCCTCCGCCCAGCACTGGAGTCCCACCAAGCTGGGGCATGGGCTGTGCTGCTGGGTCCTACAAGGAGCCCCCAGGGGGGTCTGAGCAGCACAGCTGCCCCAAAGAGGTGATGGGGAAGGGGGCAGGTCCATGCTGGCCCCAGCCTGGGCTGGACTGTGGTCTTGGCTGCTGTTTGTCACGGAGTCCTGGCCCCTTCTGTGTGCTGCGAATGGGTGCAAATGGCACTTCTGCTGTGGGTGTCCCTGTCCTCCCAGCAGGGCTGGGGTGATGGGAAGGGCAGCAAGGTGCTCGGTTAGCCATGGATCTGCTGGCCTTGAGGGCTGCAGCACAGCATGGCCCTCCTGCCCAGCGCTGAGCAGAGTTTGTGTGCAG
Seq C2 exon
CTTGCGGGGAGATGGTACAGCATCGGCCTGGCCTCCAACTCCAACTGGTTCAAGGACAAGAAGCACCTGCTGAAGATGTGTACCACAGACATTGCTGTCACTGCAGATGGCAACATGGAGGTCACCTCCACCTACCCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028529:ENSGALT00000014675:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.085
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006118=Lipocalin=PU(31.5=95.7)
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:
TGCTCGGCTGGGGACATG
R:
TTGGGGTAGGTGGAGGTGAC
Band lengths:
254-767
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]