HsaINT0031533 @ hg19
Intron Retention
Gene
ENSG00000164045 | CDC25A
Description
cell division cycle 25 homolog A (S. pombe) [Source:HGNC Symbol;Acc:1725]
Coordinates
chr3:48205797-48207224:-
Coord C1 exon
chr3:48207126-48207224
Coord A exon
chr3:48205928-48207125
Coord C2 exon
chr3:48205797-48205927
Length
1198 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
GGTCTCTGTTGTCTTCACAGGGT
3' ss Score
9.44
Exon sequences
Seq C1 exon
ATGGCATCTGTTTTGAATGGCAAGTTTGCCAACCTCATTAAAGAGTTTGTTATCATCGACTGTCGATACCCATATGAATACGAGGGAGGCCACATCAAG
Seq A exon
GTATGGATTCCTGAGACTTGCTGTAGAAGGAGCCCTAAACAGGATCTGTGGTTTTAAAGTGGGGAGGACAGTGACACCTGGCCACTTAGCTCATATGCTAGTTGTTAGAATTTTGAAACAATACAGTGAGTGTGGAAGGCATTTGATTCCGGGTGCTCTTAACGAATGTTCCCTTGTCTGCAATACTCTCTACCACCTTGTGCACAGTTATTCTTCATGTTTGTCCCTCACACCATCATTATCAAGGACACTTGTAGGAGGTACCCACTGATGTTTAAGTCATTCGGGGGACAAGAATGGGTTTCATAGCATTTAAGAGGCTTGGGTACCAATGTCTGAGCACCCCAGGGCTCCTGATGAGGAGAAGACCATCTCTGGCAACATGTCCTGGTGTCTGTGCCAGGCCTAGTGATGCCTCCAAAGTTGATTGTTCAGCAAGCTGCCTGGTGGAGGGGCGTGTTGGGACACACGTTCCCAAGAAGAAAGGAACTGATTTTGCCATTTTAATCTTTTTTTTTTTTTTTTTTTGAGACAGAGTCCGCTCTGTCGCCAGGCTGGAGTGCAGTGGCATGATCTCGGATCACCACAACCTCTGCCTCCTGGGTTCAAGCAATTCTCCTGCCTCAGCCTTCCAAGTAGCTGGGACTACAGGTGCACGCTGCCACGCCCGGCTAATTTTTTTTTTTTTTTAGTAGAGACGGGGTTTCACCATGTTGCCCGGGCTGGTCTCAAACTCCTGAGCTCAGGCAAACCGCCCGCCTCAGCCTCCCAAAGTGCTAGGATTACAGGCATGAGCCACGGCGCCTGGCCTGCCATTTTAATGTTTTACCCGATTAATAGTGTTTAAATATAGTAAGGAGGTACTTTAAATACGATGTTACTGTTTGCCATTGTCTTGTGGCTTTTGAAAATCCCCAAATTTATAAAACTACCTATAAAGTGTACCATTGTCATATTTGAATTGCCCATTTCCAGTCCCCATGTGCATTACTGTATGATGAACGTGTACGGACCCACAAAGCTCCATTGAGATACAGGTGCCAAATGGTCTACTGGGCTATTCAGCTAGAAGAACTGCAAAAATCACAAACTGGTCTTGTGGACTTAAAGATCACTCTTGATGAATCATTACATCTTGCTGAATCATTACTTCATGTGTGAAACGTGCAGGTTCCAAGGGTCTCTGTTGTCTTCACAG
Seq C2 exon
GGTGCAGTGAACTTGCACATGGAAGAAGAGGTTGAAGACTTCTTATTGAAGAAGCCCATTGTACCTACTGATGGCAAGCGTGTCATTGTTGTGTTTCACTGCGAGTTTTCTTCTGAGAGAGGTCCCCGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164045-CDC25A:NM_001789:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0058115=Rhodanese=PU(25.9=84.8)
A:
NA
C2:
PF0058115=Rhodanese=FE(39.8=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:
TGGCATCTGTTTTGAATGGCA
R:
GACCTCTCTCAGAAGAAAACTCGC
Band lengths:
222-1420
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)