GgaINT0125129 @ galGal3
Intron Retention
Gene
ENSGALG00000001314 | PTGS1
Description
NA
Coordinates
chr17:9476193-9476658:+
Coord C1 exon
chr17:9476193-9476276
Coord A exon
chr17:9476277-9476411
Coord C2 exon
chr17:9476412-9476658
Length
135 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
TCTGTTCCTGTCCCCCTGAGGTG
3' ss Score
1.8
Exon sequences
Seq C1 exon
GTGGACCTGGGGCACCTGTATGGGGACAACCTGCAGCGGCAGCACCAGCTGCGGCTCTTCCAAGATGGGAAGCTCAAATTTCAG
Seq A exon
GTACTGCACGGCATGATATAATGAGATGCGTCTTGGTCCCATGCCCCAAGATAGCTGGAAGCCCACATCCCTCTGGCAGCTGCCAGGACCACGTGGCTTCCTCCCCAGCTCACTTTCTGTTCCTGTCCCCCTGAG
Seq C2 exon
GTGGTGAACGGGGAGGTGTACCCACCGTCCGTCACCGAGGTGCCGGTGCACATGGTCTACCCACCCGCCATCCCCAAGGAGAAGCAGCTGGCAATGGGGCAGGAGGTGTTCGGGCTGCTGCCAGGGCTCTGCATGTATGCCACGCTCTGGCTGCGTGAGCACAACCGTGTCTGTGACATTCTGAAGCAGGAGCATCCCACCTGGGGCGACGAGCAGCTCTTCCAGACAGCGCGGCTCATCCTCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001314:ENSGALT00000034903:5
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=0.000
Domain overlap (PFAM):
C1:
PF0309810=An_peroxidase=FE(6.1=100)
A:
NA
C2:
PF0309810=An_peroxidase=FE(18.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCGGCTCTTCCAAGATGG
R:
GAAGAGCTGCTCGTCGCC
Band lengths:
258-393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]