GgaINT0090388 @ galGal3
Intron Retention
Gene
ENSGALG00000004934 | CDC25A
Description
NA
Coordinates
chr2:481714-482459:+
Coord C1 exon
chr2:481714-481812
Coord A exon
chr2:481813-482328
Coord C2 exon
chr2:482329-482459
Length
516 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
GGGTGCGGCTGCCTTCACAGGGT
3' ss Score
6.14
Exon sequences
Seq C1 exon
ATTGTGTCTGTCCTGACTGGAAAGTTTGCAAGCTTCATTAAGGAGTGTGTGATCATTGACTGTCGCTATCCGTACGAGTACGAAGGAGGACACATCAAG
Seq A exon
GTATGCTGCCGTAGTGGGAGAGCAAAGCAGAGCTGCACGGAGCAGCAGCCCTGGGCTTTCATTGTGCCCGTGTGGGTCTGCACACACGTGGTTTGTGGAGTGGCTGCTCTGTAAGGGGGGAACTGCTTCCCCTCTCCTGCAGAGGAGGAGATGAGTGGGCAGGCAGCTCCAGGGGAGGGTGCCTGACTGACCTGCAGTGCTCAGCATCCTCATCTCCGGGGTACTGAGAGGAGTATTACACTTCATTTAAAACAGTCTTTTGCTGTAGAACTGCGGAGGGTGCTCTTAAGGCTTGTTGCTCAGTAAGCTTGCTGCCCCTCTCCAATACGATGGGTGAAATCCAGCTGGCTGCGTCCAGCTGCTGATGGGGCTGTCTGAAATGGGAGGCAGTGCAGCACTGGGCTGTGTGCAGTGTCTGCTTCGGTTCGAAGCTTTGTCCTTCATCAAGAGAGGGTTGGCATGAGTGGGATGCACTCACTGCTTACTGAGCGCCTTCGGGTGCGGCTGCCTTCACAG
Seq C2 exon
GGTGCTGTAAACCTCCACATGGAGGAGGATGTGGAAGACTTTCTGCTTAAGAACCCAATCCCTCCCTCGAAGAACAAACGGGTGATCATCGTCTTCCACTGCGAGTTCTCCTCGGAGCGGGGGCCCCGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004934:ENSGALT00000007893:13
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=PU(26.2=84.8)
A:
NA
C2:
PF0058115=Rhodanese=FE(40.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGTGTCTGTCCTGACTGGA
R:
CCCGCTCCGAGGAGAACTC
Band lengths:
220-736
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]