HsaINT0031555 @ hg19
Intron Retention
Gene
ENSG00000101224 | CDC25B
Description
cell division cycle 25 homolog B (S. pombe) [Source:HGNC Symbol;Acc:1726]
Coordinates
chr20:3781390-3781740:+
Coord C1 exon
chr20:3781390-3781512
Coord A exon
chr20:3781513-3781617
Coord C2 exon
chr20:3781618-3781740
Length
105 bp
Sequences
Splice sites
5' ss Seq
AATGTGCGC
5' ss Score
2.86
3' ss Seq
CTCTCCCATCTTGGCTGCAGGAT
3' ss Score
8.36
Exon sequences
Seq C1 exon
GTGAGGCTGCTGGGCCACAGCCCCGTGCTTCGGAACATCACCAACTCCCAGGCGCCCGACGGCCGGAGGAAGAGCGAGGCGGGCAGTGGAGCTGCCAGCAGCTCTGGGGAAGACAAGGAGAAT
Seq A exon
GTGCGCTTCTGGAAGGCCGGGGTGGGAGCTCTCCGGGAAGAGGAGGGGGCATGCTGGGGTGGTTCCCTGGCATGTGAGGACCCTCCTCTCCCATCTTGGCTGCAG
Seq C2 exon
GATGGATTTGTCTTCAAGATGCCATGGAAGCCCACACATCCCAGCTCCACCCATGCTCTGGCAGAGTGGGCCAGCCGCAGGGAAGCCTTTGCCCAGAGACCCAGCTCGGCCCCCGACCTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101224-CDC25B:NM_004358:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.773 A=NA C2=0.680
Domain overlap (PFAM):
C1:
PF066178=M-inducer_phosp=FE(14.7=100)
A:
NA
C2:
PF066178=M-inducer_phosp=PD(0.1=0.0),PF066178=M-inducer_phosp=FE(20.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGCTTCGGAACATCACCAA
R:
GCCGAGCTGGGTCTCTGG
Band lengths:
210-315
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)