HsaINT0031554 @ hg19
Intron Retention
Gene
ENSG00000101224 | CDC25B
Description
cell division cycle 25 homolog B (S. pombe) [Source:HGNC Symbol;Acc:1726]
Coordinates
chr20:3781109-3781512:+
Coord C1 exon
chr20:3781109-3781145
Coord A exon
chr20:3781146-3781389
Coord C2 exon
chr20:3781390-3781512
Length
244 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CGCCCTGCCTGGCTCTCTAGGTG
3' ss Score
10.58
Exon sequences
Seq C1 exon
CGAGCAGTTTGCCATCAGACGCTTCCAGTCTATGCCG
Seq A exon
GTGAGTGTCTTCGAGGCCTGACTGAGGCTTAGGCATGCTAGCCAGGCATGGGGTAGATGAGCAGGATGCATTCAGGGATCACCTCCCAGCTGGGTGTCCCCAGGCAGGCTGTAGGAGATGGGGTTTCAGAGGTAGGTAGGTAAGTGGGAGGAGCTGGAGGAGAGGTGGAGAAGGTAGGGCCTGGGCTCGTGCCGGAGGAATGCAGCCTTCATTCCTCTGCCTGCCGCCCTGCCTGGCTCTCTAG
Seq C2 exon
GTGAGGCTGCTGGGCCACAGCCCCGTGCTTCGGAACATCACCAACTCCCAGGCGCCCGACGGCCGGAGGAAGAGCGAGGCGGGCAGTGGAGCTGCCAGCAGCTCTGGGGAAGACAAGGAGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101224-CDC25B:NM_004358:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.773
Domain overlap (PFAM):
C1:
PF066178=M-inducer_phosp=FE(28.6=100),PF066178=M-inducer_phosp=PU(0.1=0.0)
A:
NA
C2:
PF066178=M-inducer_phosp=FE(14.7=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:
CGAGCAGTTTGCCATCAGACG
R:
TCTCCTTGTCTTCCCCAGAGC
Band lengths:
158-402
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)