HsaINT0031550 @ hg19
Intron Retention
Gene
ENSG00000101224 | CDC25B
Description
cell division cycle 25 homolog B (S. pombe) [Source:HGNC Symbol;Acc:1726]
Coordinates
chr20:3785216-3786761:+
Coord C1 exon
chr20:3785216-3785327
Coord A exon
chr20:3785328-3785467
Coord C2 exon
chr20:3785468-3786761
Length
140 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGCG
5' ss Score
3.26
3' ss Seq
CCCCTCCTGTCCTGCCCTAGAAC
3' ss Score
10.28
Exon sequences
Seq C1 exon
GTGCCGTTTCATCAGGGAACGAGACCGTGCTGTCAACGACTACCCCAGCCTCTACTACCCTGAGATGTATATCCTGAAAGGCGGCTACAAGGAGTTCTTCCCTCAGCACCCG
Seq A exon
GTAGCGTGGGTGGGGAAGGCCACAGTCTCTGTGTGAGGGTTGGCTTGGCCAGGCTGGAGCCATGGGATGGGGGGTGGGAGGGTTGGGTCCCTGCCAAACTTACCCATTCCACTGCATTGACCCCTCCTGTCCTGCCCTAG
Seq C2 exon
AACTTCTGTGAACCCCAGGACTACCGGCCCATGAACCACGAGGCCTTCAAGGATGAGCTAAAGACCTTCCGCCTCAAGACTCGCAGCTGGGCTGGGGAGCGGAGCCGGCGGGAGCTCTGTAGCCGGCTGCAGGACCAGTGAGGGGCCTGCGCCAGTCCTGCTACCTCCCTTGCCTTTCGAGGCCTGAAGCCAGCTGCCCTATGGGCCTGCCGGGCTGAGGGCCTGCTGGAGGCCTCAGGTGCTGTCCATGGGAAAGATGGTGTGGGTGTCCTGCCTGTCTGCCCCAGCCCAGATTCCCCTGTGTCATCCCATCATTTTCCATATCCTGGTGCCCCCCACCCCTGGAAGAGCCCAGTCTGTTGAGTTAGTTAAGTTGGGTTAATACCAGCTTAAAGGCAGTATTTTGTGTCCTCCAGGAGCTTCTTGTTTCCTTGTTAGGGTTAACCCTTCATCTTCCTGTGTCCTGAAACGCTCCTTTGTGTGTGTGTCAGCTGAGGCTGGGGGAGAGCCGTGGTCCCTGAGGATGGGTCAGAGCTAAACTCCTTCCTGGCCTGAGAGTCAGCTCTCTGCCCTGTGTACTTCCCGGGCCAGGGCTGCCCCTAATCTCTGTAGGAACCGTGGTATGTCTGCCATGTTGCCCCTTTCTCTTTTCCCCTTTCCTGTCCCACCATACGAGCACCTCCAGCCTGAACAGAAGCTCTTACTCTTTCCTATTTCAGTGTTACCTGTGTGCTTGGTCTGTTTGACTTTACGCCCATCTCAGGACACTTCCGTAGACTGTTTAGGTTCCCCTGTCAAATATCAGTTACCCACTCGGTCCCAGTTTTGTTGCCCCAGAAAGGGATGTTATTATCCTTGGGGGCTCCCAGGGCAAGGGTTAAGGCCTGAATCATGAGCCTGCTGGAAGCCCAGCCCCTACTGCTGTGAACCCTGGGGCCTGACTGCTCAGAACTTGCTGCTGTCTTGTTGCGGATGGATGGAAGGTTGGATGGATGGGTGGATGGCCGTGGATGGCCGTGGATGCGCAGTGCCTTGCATACCCAAACCAGGTGGGAGCGTTTTGTTGAGCATGACAGCCTGCAGCAGGAATATATGTGTGCCTATTTGTGTGGACAAAAATATTTACACTTAGGGTTTGGAGCTATTCAAGAGGAAATGTCACAGAAGCAGCTAAACCAAGGACTGAGCACCCTCTGGATTCTGAATCTCAAGATGGGGGCAGGGCTGTGCTTGAAGGCCCTGCTGAGTCATCTGTTAGGGCCTTGGTTCAATAAAGCACTGAGCAAGTTGAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101224-CDC25B:NM_004358:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0058115=Rhodanese=PD(32.4=92.1)
A:
NA
C2:
NO
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:
AACGACTACCCCAGCCTCTAC
R:
GAAAGGCAAGGGAGGTAGCAG
Band lengths:
256-396
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)