RnoINT0032505 @ rn6
Intron Retention
Gene
ENSRNOG00000020737 | Cdc25a
Description
cell division cycle 25A [Source:RGD Symbol;Acc:621498]
Coordinates
chr8:117967074-117967526:+
Coord C1 exon
chr8:117967074-117967172
Coord A exon
chr8:117967173-117967395
Coord C2 exon
chr8:117967396-117967526
Length
223 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGA
5' ss Score
5.13
3' ss Seq
AGTGTCTGCTGTCTTCACAGGGT
3' ss Score
8.91
Exon sequences
Seq C1 exon
ATGGCATCTGTTTTGAATGGCAAGTTTGCCAATCTCATTAAAGAGTTTGTTATCATTGACTGCCGATACCCATATGAATATGAAGGAGGGCACATCAAG
Seq A exon
GTTTGAATTCTTGAGATGTTTTCTCTTGGGAGTCTTAGATGGTGGGATATGACATCTCTTACCTGACAGTGATAATTTAAAACAAGCCAATGAACATGAACTGAATGAATGTTCCCACCAGTTCCACTTCACTCCCTCATACTGTCCTGTTTCAGGACATTTCCAAGTGGCATCCCTGATGTCTAAGCTCCTCAGTGGGCCGCAGTGTCTGCTGTCTTCACAG
Seq C2 exon
GGTGCCGTGAACTTGCACATGGAAGAAGAGGTTGAGGAGTTCTTACTCAAGAAACCTATCGTGCCCGCTGACGGCAAGCGTGTCATTGTCGTGTTCCACTGTGAGTTCTCCTCTGAGAGAGGCCCTCGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020737:ENSRNOT00000028141:12
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(25.9=84.8)
A:
NA
C2:
PF0058115=Rhodanese=FE(39.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCATCTGTTTTGAATGGCA
R:
ATCCGAGGGCCTCTCTCAGAG
Band lengths:
229-452
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]