GgaINT0044280 @ galGal3
Intron Retention
Gene
ENSGALG00000007014 | PYROXD2
Description
NA
Coordinates
chr6:23675595-23675961:+
Coord C1 exon
chr6:23675595-23675692
Coord A exon
chr6:23675693-23675819
Coord C2 exon
chr6:23675820-23675961
Length
127 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
TCCCCTTGGCTGACCCACAGGTA
3' ss Score
8.45
Exon sequences
Seq C1 exon
ATCCTGGATCACTGGTTTGAGTCAGAGCCTTTGAAGGCTACTTTGGCAACAGATGCAGTGATTGGGGCCATGAGCAGCCCCCACACCCCTGGTGGTGG
Seq A exon
GTAAGGGTCACATCCCTTCCCTGGCTCTTGTGGCTCTGTGTGCTGGCCACTGAAGCTCTCATAAGGGCATCCTGGCCATGGGGGACACGCGCAGGGGACAGACCTCATCCCCTTGGCTGACCCACAG
Seq C2 exon
GTATGTGCTGCTGCACCACGTCATGGGTGAGCTGGAGGGGCGGCGCGGTGCCTGGGGCTATGTGGCTGGGGGCATGGGGGCTCTGTCCCAAGCCATTGCCCGTGCAGCAGCCACCTACGGTGCCCACATCTTTACAGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007014:ENSGALT00000011349:8
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:
NO
A:
NA
C2:
PF0099613=GDI=PU(36.3=68.8)
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:
CCTGGATCACTGGTTTGAGTCA
R:
TGCTCTGTAAAGATGTGGGCAC
Band lengths:
237-364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]