GgaINT0044281 @ galGal3
Intron Retention
Gene
ENSGALG00000007014 | PYROXD2
Description
NA
Coordinates
chr6:23675820-23676186:+
Coord C1 exon
chr6:23675820-23675961
Coord A exon
chr6:23675962-23676051
Coord C2 exon
chr6:23676052-23676186
Length
90 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
GTTCCCTCCCCTCTGCCCAGGCC
3' ss Score
8.75
Exon sequences
Seq C1 exon
GTATGTGCTGCTGCACCACGTCATGGGTGAGCTGGAGGGGCGGCGCGGTGCCTGGGGCTATGTGGCTGGGGGCATGGGGGCTCTGTCCCAAGCCATTGCCCGTGCAGCAGCCACCTACGGTGCCCACATCTTTACAGAGCAG
Seq A exon
GTATGGGGTTTCTGGGCTTAGTGAGTGCTGTGGGATGTGTGCTGCTGGCTGTGGGGATGAATGGGGTGAGGTTCCCTCCCCTCTGCCCAG
Seq C2 exon
GCCGTGTGCCGCGTGCTGCTGGGATCTGATGGGCAGGCGCAGGGCGTCGTGATGCAGGATGGGACGGAGGTGAGGAGTAAAGTGGTGTTGTCCAACGCCTCCCCCCAGCTCACCTTCCTGGAGCTCACCCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007014:ENSGALT00000011349:9
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=0.067
Domain overlap (PFAM):
C1:
PF0099613=GDI=PU(36.3=68.8)
A:
NA
C2:
PF0099613=GDI=FE(48.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGGGGCTCTGTCCCAAG
R:
GGCGTTGGACAACACCACTTT
Band lengths:
168-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]