GgaINT0044283 @ galGal3
Intron Retention
Gene
ENSGALG00000007014 | PYROXD2
Description
NA
Coordinates
chr6:23676268-23676576:+
Coord C1 exon
chr6:23676268-23676340
Coord A exon
chr6:23676341-23676419
Coord C2 exon
chr6:23676420-23676576
Length
79 bp
Sequences
Splice sites
5' ss Seq
ACGGTATGG
5' ss Score
8.47
3' ss Seq
CCCCATGGTCCCCATCCAAGTGG
3' ss Score
1.94
Exon sequences
Seq C1 exon
GAGCGGCTGCCAGAGGACTTTGTGCGGCGGATCCAGCAGCTCGACACACGTTCCCCTGTCACCAAAATCAACG
Seq A exon
GTATGGACAAGGAGCCGCTCTCGCTATCCTTGCTCAGGCATGCTTAAAACACTTACGCACCCCATGGTCCCCATCCAAG
Seq C2 exon
TGGCGGTGGACCGGCTGCCTAGCTTCCTGGCTGCCCCCAACACCCGTGACAGCCAACCTCTGCCCCACCACTGCTGCTCCATCCACCTCAACTGCGAGGGCACACACCTCCTGCACCAGGCTTACACCGAGGCTGCCCACGGGCACCCCTCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007014:ENSGALT00000011349:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.094
Domain overlap (PFAM):
C1:
PF0099613=GDI=PD(12.1=44.0)
A:
NA
C2:
NO
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:
GGCTGCCAGAGGACTTTGTG
R:
CTCGCAGTTGAGGTGGATGGA
Band lengths:
167-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]