HsaINT0031541 @ hg19
Intron Retention
Gene
ENSG00000164045 | CDC25A
Description
cell division cycle 25 homolog A (S. pombe) [Source:HGNC Symbol;Acc:1725]
Coordinates
chr3:48218861-48219478:-
Coord C1 exon
chr3:48219344-48219478
Coord A exon
chr3:48218933-48219343
Coord C2 exon
chr3:48218861-48218932
Length
411 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCG
5' ss Score
9.67
3' ss Seq
CAGTTTTTCTGTTTCTTTAGAAT
3' ss Score
8.13
Exon sequences
Seq C1 exon
CTTTCCTCAAATGAAAGAGATAGCAGTGAACCAGGGAATTTCATTCCTCTTTTTACACCCCAGTCACCTGTGACAGCCACTTTGTCTGATGAGGATGATGGCTTCGTGGACCTTCTCGATGGAGAGAATCTGAAG
Seq A exon
GTACCGTGTGTGTGTGTGTGTGTTCCTATTTGTTCTACTAATTAATTACCTCTGGAGAAGGCATGTGATGTGAAAAAGAACAGCAACAGCAGTTCCCCGGGGCTTGCTTAGCTGATATTTTTGTTCATTTGGTGATAATTCATTTAATAATAGGGCTACCAGCCTTATTAAATCCTTTGGATTGGGGGATGGGGGCATCAAAAGAAGACACATGATCCTTCTTACCCTGAAGGAGCTAACTAACAATCTATATGCAAGAAACATGAAATCAGAACGGTATAGGATGGTACATTAAGGATACTTCCTATCCAGGCCTATCTGGTATTGTTCAGGGAGAAACACACCTAAAGCACTTAAACAAATGTTAGTCTCTACAGGCTCTTTTTAAAATCAGTTTTTCTGTTTCTTTAG
Seq C2 exon
AATGAGGAGGAGACCCCCTCGTGCATGGCAAGCCTCTGGACAGCTCCTCTCGTCATGAGAACTACAAACCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164045-CDC25A:NM_001789:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.985 A=NA C2=0.485
Domain overlap (PFAM):
C1:
PF066178=M-inducer_phosp=PD(1.7=2.2),PF066178=M-inducer_phosp=FE(29.9=100)
A:
NA
C2:
PF066178=M-inducer_phosp=FE(15.6=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:
TTTCCTCAAATGAAAGAGATAGCAGT
R:
AAGGTTTGTAGTTCTCATGACGA
Band lengths:
206-617
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)