HsaINT0031557 @ hg19
Intron Retention
Gene
ENSG00000101224 | CDC25B
Description
cell division cycle 25 homolog B (S. pombe) [Source:HGNC Symbol;Acc:1726]
Coordinates
chr20:3781901-3782449:+
Coord C1 exon
chr20:3781901-3782035
Coord A exon
chr20:3782036-3782368
Coord C2 exon
chr20:3782369-3782449
Length
333 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
CCTTGCTAATCTGGCCTCAGGAT
3' ss Score
7.12
Exon sequences
Seq C1 exon
TGTCTCAGTCCTGACCGGAAGATGGAAGTGGAGGAGCTCAGCCCCCTGGCCCTAGGTCGCTTCTCTCTGACCCCTGCAGAGGGGGATACTGAGGAAGATGATGGATTTGTGGACATCCTAGAGAGTGACTTAAAG
Seq A exon
GTAAACAGCCTTGTCCCACCAGGCCCCTACCTTCCTATCCCTGGGTTCGCCCAAAAGAAGAGAGCTCTGAGCCCTTGTGGCAGGACCATGATGTCATTCCAGTGTCAGAAGAAGAATCTGAGGTAACTGAGTCACAGCCTAACCTCTGGCCAATGAGAGAAGAACAGGTGGCTGGTGCCACAGTGGAGGGCGGTTTGGGAGGTAGGGGAGCTTCTCACCCCAACCTGGAGTTTGCCAGGGAAACAGGGAAGGCTGTGCTGGAGGATTCCGGGACTGGAGGGGTTTGGCCTATGCCTGTGGGTTGTGACCCTGTCCTTGCTAATCTGGCCTCAG
Seq C2 exon
GATGATGATGCAGTTCCCCCAGGCATGGAGAGTCTCATTAGTGCCCCACTGGTCAAGACCTTGGAAAAGGAAGAGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101224-CDC25B:NM_004358:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.663 A=NA C2=0.674
Domain overlap (PFAM):
C1:
PF066178=M-inducer_phosp=FE(25.6=100),PF066178=M-inducer_phosp=PU(1.3=2.2)
A:
NA
C2:
PF066178=M-inducer_phosp=FE(13.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTCAGTCCTGACCGGAAGA
R:
TCCAAGGTCTTGACCAGTGGG
Band lengths:
199-532
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)