GgaINT0014558 @ galGal3
Intron Retention
Gene
ENSGALG00000003822 | COX19
Description
NA
Coordinates
chr14:2242293-2242590:-
Coord C1 exon
chr14:2242509-2242590
Coord A exon
chr14:2242409-2242508
Coord C2 exon
chr14:2242293-2242408
Length
100 bp
Sequences
Splice sites
5' ss Seq
TCGGTGCGG
5' ss Score
6.54
3' ss Seq
GCCCTCGCTGTGTGTTGCAGGGG
3' ss Score
9.35
Exon sequences
Seq C1 exon
ATGTCTACCGCTATGAACTTCAGCGCCAAGAGCTTCAAGCCGCGGCCGCCGGACAAGGGCGCCTTCCCGCTGGATCACTTCG
Seq A exon
GTGCGGTAACGCGACTTGCCGCCGGGCCCCGCTCCCCCTCAGCGCCGCGCGAGCCCCAGCCCGAGCCCGGCAGCAGCGCGGCCCTCGCTGTGTGTTGCAG
Seq C2 exon
GGGAGTGCAGCGCCTTCAAGGAGCGCTTCATGCAGTGCCTCCGCGACAGCGGCTTCGAGAGCGGCGCGTGCCGGGAGCGCGCCATGGCCTACCTGCAGTGCCGCATGGACAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003822:ENSGALT00000006058:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF050518=COX17=PU(16.0=14.3)
A:
NA
C2:
PF050518=COX17=PD(80.0=51.3),PF067478=CHCH=WD(100=89.7)
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:
TGTCTACCGCTATGAACTTCAGC
R:
CCTGTCCATGCGGCACTG
Band lengths:
194-294
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]