GgaINT0090389 @ galGal3
Intron Retention
Gene
ENSGALG00000004934 | CDC25A
Description
NA
Coordinates
chr2:482329-482684:+
Coord C1 exon
chr2:482329-482459
Coord A exon
chr2:482460-482572
Coord C2 exon
chr2:482573-482684
Length
113 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
AATTGGGGTCTCCTCTGCAGGTG
3' ss Score
9.09
Exon sequences
Seq C1 exon
GGTGCTGTAAACCTCCACATGGAGGAGGATGTGGAAGACTTTCTGCTTAAGAACCCAATCCCTCCCTCGAAGAACAAACGGGTGATCATCGTCTTCCACTGCGAGTTCTCCTCGGAGCGGGGGCCCCGGAT
Seq A exon
GTGAGTTACCCACACACCCCCACGTGAGCCTACGGCCGAGCTGTGGAGGGCAGAGGAGGCACTGCTCTCCCTCGTTGCTTAATGCCAGCTTTAAATTGGGGTCTCCTCTGCAG
Seq C2 exon
GTGCCGCTTTGTGAGGGAGCGGGACAGGCTGGGGAATGAGTACCCCAACCTGCATTACCCAGAGCTGTACGTCCTCAAGGGGGGGTACAGAGACTTCTTCCTGCGATGCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004934:ENSGALT00000007893:14
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:
PF0058115=Rhodanese=FE(40.2=100)
A:
NA
C2:
PF0058115=Rhodanese=PD(31.8=89.5)
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:
GGTGCTGTAAACCTCCACATGG
R:
CGGCATCGCAGGAAGAAGTC
Band lengths:
242-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]