HsaINT0031547 @ hg19
Intron Retention
Gene
ENSG00000101224 | CDC25B
Description
cell division cycle 25 homolog B (S. pombe) [Source:HGNC Symbol;Acc:1726]
Coordinates
chr20:3783557-3783853:+
Coord C1 exon
chr20:3783557-3783619
Coord A exon
chr20:3783620-3783754
Coord C2 exon
chr20:3783755-3783853
Length
135 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAAC
5' ss Score
5.88
3' ss Seq
ACCCCCATGACCTCCTACAGATG
3' ss Score
6.48
Exon sequences
Seq C1 exon
GCCTTCCTCCTACAGACAGTAGACGGAAAGCACCAAGACCTCAAGTACATCTCACCAGAAACG
Seq A exon
GTAAACAGCGTTGCGTCATTTTCTAGGCAGATTTGGGACTGTAGCTCCATTGTTGACCTTCCCTGGGGACAGGCTAGGGCCACCTGCCAGCTGCCAGCCTGACCTGCCGGAACCAACCCCCATGACCTCCTACAG
Seq C2 exon
ATGGTGGCCCTATTGACGGGCAAGTTCAGCAACATCGTGGATAAGTTTGTGATTGTAGACTGCAGATACCCCTATGAATATGAAGGCGGGCACATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101224-CDC25B:NM_004358:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.173 A=NA C2=0.078
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0058115=Rhodanese=PU(25.0=81.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTTCCTCCTACAGACAGTA
R:
CTTGATGTGCCCGCCTTCATA
Band lengths:
162-297
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)