RnoINT0032506 @ rn6
Intron Retention
Gene
ENSRNOG00000020737 | Cdc25a
Description
cell division cycle 25A [Source:RGD Symbol;Acc:621498]
Coordinates
chr8:117967396-117969582:+
Coord C1 exon
chr8:117967396-117967526
Coord A exon
chr8:117967527-117969470
Coord C2 exon
chr8:117969471-117969582
Length
1944 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
CCTTTGTTCCTCTTCCCTAGGTG
3' ss Score
12.97
Exon sequences
Seq C1 exon
GGTGCCGTGAACTTGCACATGGAAGAAGAGGTTGAGGAGTTCTTACTCAAGAAACCTATCGTGCCCGCTGACGGCAAGCGTGTCATTGTCGTGTTCCACTGTGAGTTCTCCTCTGAGAGAGGCCCTCGGAT
Seq A exon
GTGAGTACCACAAAGAACCAGGCTTTGGGCGGAGGCTCCGTGACAGTGAAGTCACTGCAGTGCCTCAGTCTACACATTATGTGTATTTATAACATAGTTTCCCTCAGTAGTACTTCCTATCCACTGGCTTGTCTTTCAAACAGCCCTCCTCCTCCTCCTCCTCCTCCTCCTTCTTCTTCCTCTTCCTCCTCTTCCTCCTCCTCCTCTTCTCCTCCTTCTCCTTCTTCCTCTTCCTCTTCTCTTTCCTTTCTCTCATCTCTTCTTCTCTCTCCTCCTCCCTAACCTCCCCCTCCTCAAAAAAAGGGTTTCACTGCATAACCCTGGGTATCCCTGGAACTCACTCTGAAGAACAGACTAGCCTCAAACTCACAGAGATCCACCTGCTTCTTTCTGCCTCTTGAGTGCTGGGATTTAGACACCCAGCCAAAAAGGGTTTTTTTATGATTACTATTTATATTTTGTGTAAGTGCCACACCATAGTGTGTGTGTGTCGAGTACAGAGGACAAATTAAATGTGCTCTACCATGTGCATTTCAGAGTTGTCGAGTAACTTTTACTCATCTTGCTATCCCAATCTTTTTTTTTCCCTTTTTTGGTGGGGAGGGGTTCAAGGTATGGGTTTCTCTGTTGGGCGCTAGATGTCTTGGAACTCACTCTGTAGGCCATGCTAGTCTCCAACTCAGATCCGCTGTCCTTTGCCTCTGGAGTGGGGGGTGAAGGCCTTCAACACCTTTGTAATATCAGCAGGGGTTCAGCCTCTTACCAAGTGGCTCACTATTGGTCCTTTATATTTTTACTTCCGCTCTCTAGTTCCCCACTGTACTGAGTTCTACTTACTAGTCTCATAACATCCTTTAAATCCAAGCAGTTCTTCCTTAAGCAAAAGACAGAAAAGTCTGAAGGTTCTACTCTCAATTGTTGATAATGGTGGCACATGCCTTATTCCAGCCCCGGGAAGCTAAAGCTAGAGGGTCAGGAGTGTAAGGCCAGCCTGAGCTTCATGAGACCTGTAACAAAAAAGCAAACTAACTTCCTGTCAGGTTAGGAGTGTGGTTCTCTAGTATCTGAGGACCTGGGTTCAAGAGCAGGTATGATGGCACATGGCTTTAATTCCAGCACTCAGATTCAAAGTCAGTCTGGACTACACAGGGATATAGTGAGATCCTGTCACCAAAAACAACGAACAAAAAAGCCAAAACCAAAAACAACGAAACACCCCAAATTTAGCACATGAAAGGTAACACCTGAGCAGGGCCTGAATATTCACACATGAATGGAGATATGGGGATCTGCATCCTCTCAGGTTTTTATTTGTTATTTTAGCAATAACAATATAATAACCAAAACTATCTTTGTGGAGGTCACATTTCAGAGTAGATAGGAGGCAGACAAGCATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACGGGTTGGGGATTTGGCTCAGTGGTAGAGCGCTTGCCTAGGAGGCGCAAGACCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAAAAAAAAAAAAACCCTTAGAATTATATAAAATGTTCAGAAGTCTTTCAGAATGAGGTGGAAGCTCCTGGGCAGAGGGCAAGGAGACTAGGGAAGGGTGAATGAGATGTGAGGCAGCACACATTGTAGGACACTAAACCACAGCTTGCACACCACACTGTTGGGGCGAAGTACAAAAAGACAGGACAGCACAGGGTTCTAGTACCTCCTGGGGAATTAAAAGGCCTACGCCCAAGAAGGGAAAACTTATTTTACGTGAAAGGAATTAAATGGAGGGACCTTCTGACAGATGGGAGAGCATGCCTGGCTCAAACCTACTGCTGCAGATGGGAGNNGGCAGGCGGAAGGAGTACCTGGACACCACCTGTGTTTCCCACTCCCTAAACTGAAGGAGGTGACCCAACTGTGCCCTTTGTTCCTCTTCCCTAG
Seq C2 exon
GTGCCGATATGTACGGGAACGAGATAGGCTTGGCAATGAATACCCCAAACTCCATTACCCTGAGCTGTATGTCCTGAAGGGGGGATACAAGGAGTTCTTTTTGAAATGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020737:ENSRNOT00000028141:13
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=FE(39.8=100)
A:
NA
C2:
PF0058115=Rhodanese=PD(32.4=92.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGTGAACTTGCACATGGAAG
R:
TGGCATTTCAAAAAGAACTCCTTGT
Band lengths:
238-2182
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]