HsaINT0031564 @ hg19
Intron Retention
Gene
ENSG00000158402 | CDC25C
Description
cell division cycle 25 homolog C (S. pombe) [Source:HGNC Symbol;Acc:1727]
Coordinates
chr5:137621711-137622319:-
Coord C1 exon
chr5:137622186-137622319
Coord A exon
chr5:137621823-137622185
Coord C2 exon
chr5:137621711-137621822
Length
363 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
TCTCTGGGTTCTCTCTAAAGGTG
3' ss Score
9.81
Exon sequences
Seq C1 exon
GGAGCCTTAAACTTATATAGTCAGGAAGAACTGTTTAACTTCTTTCTGAAGAAGCCCATCGTCCCTTTGGACACCCAGAAGAGAATAATCATCGTGTTCCACTGTGAATTCTCCTCAGAGAGGGGCCCCCGAAT
Seq A exon
GTGAGTGTCTAAATGGGGTCTGGCGGGTGATGGAAATGGATTTTGAGTTGGACTTCCCACACCAGTTCAGACAGAGACTGACTGGATTCTACAGTTTGAAGAATGTTAGGGAGGTTGAAGGAAGACGTTTCTAAAATTGAAAAGTTTGAAACAATAAAGGAAAAGGGATTGAGAATGAGGCTGCAGTGGAGGAAAGGAGGAAGGGTGGTACTACTTGGACCTTTTTTTGCAAACACAGGGAGATTGGAAAGTCCTTTTTGAGGTTGGCAATAGTCTACTCCTCTCCCCCCTCCCCAGTGAATGGCCCCTGGGATCCTGACCTTGTTTCTTTCCACCCCACCCATCTCTGGGTTCTCTCTAAAG
Seq C2 exon
GTGCCGCTGTCTGCGTGAAGAGGACAGGTCTCTGAACCAGTATCCTGCATTGTACTACCCAGAGCTATATATCCTTAAAGGCGGCTACAGAGACTTCTTTCCAGAATATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000158402-CDC25C:NM_001790:12
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=FE(40.7=100)
A:
NA
C2:
PF0058115=Rhodanese=PD(32.4=92.1)
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:
GGAGCCTTAAACTTATATAGTCAGGA
R:
CTGGAAAGAAGTCTCTGTAGCCG
Band lengths:
238-601
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)