HsaINT0031563 @ hg19
Intron Retention
Gene
ENSG00000158402 | CDC25C
Description
cell division cycle 25 homolog C (S. pombe) [Source:HGNC Symbol;Acc:1727]
Coordinates
chr5:137622186-137622956:-
Coord C1 exon
chr5:137622858-137622956
Coord A exon
chr5:137622320-137622857
Coord C2 exon
chr5:137622186-137622319
Length
538 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CTAAAATTCTTCTTCTACAGGGA
3' ss Score
8.12
Exon sequences
Seq C1 exon
GTGGCTGCCTTACTGTCGGGGAAGTTCCAGGGTCTGATTGAGAAGTTTTATGTCATTGATTGTCGCTATCCATATGAGTATCTGGGAGGACACATCCAG
Seq A exon
GTGAGACGACATTGTGGCCATTAGTAGGGGAGGGCTGGAGATAACTCTTTATTGAGAAGAGTCTGTGGACAAAGGGGTCTATGAACTCTAGAGTCAGGACAAAGATTACATATTTGAAGCACCTCAAGGCTGAGGTCCTCATTGTTTTAATTCTGTATACCTTAAGCAGGTTACTTTCCCTTTCCCTCCTAGATCTATCTCCCTCTTTTCTGTAGGAGCCAAGGGGTCCTACCTAGAAATAAAAACATTAATCCAAGGACTGAAGCACTTTGCAAACACTTACTATTCATGAACATTCCTCGCAGTGATCTCTATACTTCCAGTGGTTCAGGTCTATAAACATTTATTGACCATCTACAAGCTCTATGCCAGGCGTTCAGGGTATATACAGAGATATACTTAGACCCCTGCCCTAAAGGTGCTTATAGTCCAGCTTTTCTGGTCCACATTATCCCAGGTTGGCGTCTCAGTCATTTCTAAGTATTGGCACTGTCTATAAGCCCCTGAGGAAATACTTACTAAAATTCTTCTTCTACAG
Seq C2 exon
GGAGCCTTAAACTTATATAGTCAGGAAGAACTGTTTAACTTCTTTCTGAAGAAGCCCATCGTCCCTTTGGACACCCAGAAGAGAATAATCATCGTGTTCCACTGTGAATTCTCCTCAGAGAGGGGCCCCCGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000158402-CDC25C:NM_001790:11
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(25.0=81.8)
A:
NA
C2:
PF0058115=Rhodanese=FE(40.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGCCTTACTGTCGGGGAA
R:
ATTCGGGGGCCCCTCTCT
Band lengths:
230-768
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)