DreINT0043705 @ danRer10
Intron Retention
Gene
ENSDARG00000010792 | cdc25b
Description
cell division cycle 25B [Source:ZFIN;Acc:ZDB-GENE-000330-5]
Coordinates
chr13:14788283-14788620:-
Coord C1 exon
chr13:14788558-14788620
Coord A exon
chr13:14788382-14788557
Coord C2 exon
chr13:14788283-14788381
Length
176 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
TCTGTTTCTGCTTTTTACAGATG
3' ss Score
11.32
Exon sequences
Seq C1 exon
GCTCCTGCACTGCCCACAGTACAAGGAAAACACCAAGAGTTGAAGTACATCACTCCAGAGATT
Seq A exon
GTAAGTTGCTACGCAAAGATACACGGCATGTGTATTTCACGTTCAAGTGCGTGCAAAGCAACCAGTTGCATGATTAAGAGTGGAGCAGCAGGCCTTGTCATCTATATAAAGTATAATGCACTGGCATCTTTCCCATAATCCAATTTTCCACTGACATCTGTTTCTGCTTTTTACAG
Seq C2 exon
ATGGTTAAAGCAATGAGTGGACAGTTTCAAGATCTAGTGGAGAGGCTGTTTGTTATCGACTGCCGTTATCCGTATGAGTATGAAGGCGGCCATATTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000010792:ENSDART00000020576:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0058115=Rhodanese=PU(25.9=84.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCTGCACTGCCCACA
R:
TTTAATATGGCCGCCTTCATACTCA
Band lengths:
162-338
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]