HsaINT0031530 @ hg19
Intron Retention
Gene
ENSG00000164045 | CDC25A
Description
cell division cycle 25 homolog A (S. pombe) [Source:HGNC Symbol;Acc:1725]
Coordinates
chr3:48228193-48229801:-
Coord C1 exon
chr3:48229268-48229801
Coord A exon
chr3:48228270-48229267
Coord C2 exon
chr3:48228193-48228269
Length
998 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TTTATTTCTGTTGGTTTCAGTGA
3' ss Score
8.64
Exon sequences
Seq C1 exon
GAACAGCGAAGACAGCGTGAGCCTGGGCCGTTGCCTCGAGGCTCTCGCCCGGCTTCTCTTGCCGACCCGCCACGTTTGTTTGGATTTAATCTTCAGGTTGCCGGCGCCCGCCCGCCCGCTGGCCTCGCGGTGTGAGAGGGAAGCACCCGTGCCTGTGGCTGGTGGCTGGCGCCTGGAGGGTCCGCACACCCGCCCGGCCGCGCCGCTTGCCCGCGGCAGCCGCGTCCCTGAACCGCGGAGTCGTGTTTGTGTTTGACCCGCGGGCGCCGGTGGCGCGCGGCCGAGGCCGGTGTCGGCGGGGCGGGGCGGTCGCGGCGGAGGCAGAGGAAGAGGGAGCGGGAGCTCTGCGAGGCCGGGCGCCGCCATGGAACTGGGCCCGGAGCCCCCGCACCGCCGCCGCCTGCTCTTCGCCTGCAGCCCCCCTCCCGCGTCGCAGCCCGTCGTGAAGGCGCTATTTGGCGCTTCAGCCGCCGGGGGACTGTCGCCTGTCACCAACCTGACCGTCACTATGGACCAGCTGCAGGGTCTGGGCAG
Seq A exon
GTAAGGAGAGACCGGCGGGCGGTGCTCCGGGCCCCTGGCCTCGGTGTCGGCCTCGGAGAGATCAGGCCAGGAAACGGACCGGGAGAAGGGCGAGACCCGTCCGTCCGGGTTCGCCGCTCGGGGACAGCCGGGCTAGGGCCTGCCATGTGCACCCCCGCCCGGGCGGAATGTTGGGCGGGAGAGGCCGTCGGGACCTTCCAGGGGAAGAGGTGGAGATCCTTGGGCCTAAGCCCGAGCCAGGCCCACCTTCACCCCTTTCGGATTGCTCCGTACTCTCCTTCTATCTCTATCCCTGGAAGCTCTTTGGAATCTACCCCCGCGGGGAAAATCAGGCTCTTCTAGGCACTCACTTTCACCCTTTGCTAAACCATCCTCAGGATCTTCGTTTGCTGTGATCTTTGTTCCTTCTCAACAAAGGACCATGGCATTTTCTTTCCTGGCGTTTATGTAAAATCATCTCAGTCCCTCGCCCTGTGCACATTCCTGATGTCCACTCTGCTGCTTTCCTAAGGCCAGGTCTTTTTACCCAACTTTCAGAAAGCTTCCTGGGCTTTTCCTGATAGCAAAAAATGCATCCCACGGTGTTTCCCGCGGAAGAGCTACTTTCCCTTCAATCTCTGGCATCCCGTTTGCTAAGCACATGTCTTGTGCGTTTCCCAACTTCTGAAAAGCAGAAAGTGTCCTGTTCAACTTTCATCCCGACTCTGTCTCAGTACTTAGAACACATGCTTTTATTTTAGGAAATACCCCAACATTTGCCATAGCCATCATAACCTGCAATGTGGTCCAAGGCCATGCCCACCCACTCCTTTTTTCTCCTTTGCCCAAGTGCTAATTGGGTGTTCAGAGTGGCAAAGTGGGATCTTTGCCACTTGTGGTGTGGCCTAGAAATGGTTTCTGGCAGCCTGGCTGCTTCTTAATCTCATGGCCTATCTCCTGCATGTGACCTTTTAATTATATCCTATAAATCATTCATGGTTTATTTCTGTTGGTTTCAG
Seq C2 exon
TGATTATGAGCAACCACTGGAGGTGAAGAACAACAGTAATCTGCAGAGAATGGGCTCCTCCGAGTCAACAGATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164045-CDC25A:NM_001789:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.680 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCGTGTTTGTGTTTGACCCG
R:
AGGAGCCCATTCTCTGCAGAT
Band lengths:
354-1352
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)