MmuINT0032728 @ mm10
Intron Retention
Gene
ENSMUSG00000032477 | Cdc25a
Description
cell division cycle 25A [Source:MGI Symbol;Acc:MGI:103198]
Coordinates
chr9:109889032-109889841:+
Coord C1 exon
chr9:109889032-109889130
Coord A exon
chr9:109889131-109889710
Coord C2 exon
chr9:109889711-109889841
Length
580 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGG
5' ss Score
5.28
3' ss Seq
AGTGTCTGCTGTCTCCACAGGGT
3' ss Score
10.48
Exon sequences
Seq C1 exon
ATGGCATCTGTTTTGAATGGCAAGTTTGCCGGTCTCATTAAAGAGTTTGTTATCATTGACTGCCGATACCCATATGAGTATGAAGGAGGTCACATCAAG
Seq A exon
GTTTGGATTCTTGAGACTTATTATCTTGGGAGTCTTAGAAGGTGGGATAGTGACATCTCTTGGCTGACGGCCAATATACACAAACTGAATGAATATTCCCACCAGTTCCACTTCACTCCCTCATACTGTCCTGTTTCAGGGCATTTCTAGGTGGCATCCCTGATGTCTAAGCTATTCAGTGGGGCCACAAAGAGTTCCACAGCATTTGGGATATTTAAATATGAATGTTTGAGCACCCCAGAGCTCCTGAGTAAAAGAAGCCAGTTTGGCAGCATGGCCCTGGTATCTGTACCAAGGCTCTGCTGTTGAGTCAGGCTGCCTACCTTGGGAAGGGACATGTTGGAACACCAGATTTCTAGAAGGAAGGAGCTGGTCATGCCTGTTTAGTATTACCATAAAAAGCAGGATTTAAATGTGAGTGGGGATTAGCTTCTGACTTTATGAAGTGACATTTAGAAATGGCCTACAGAGAAAGCCTCACTGACATAACAGGCAGGTGGTCTACTGCGCTGCTGGGCCGTGGGACCTACAGACTCCTGGGTGTGGCTTAGCAGGTGCTCAGTGTCTGCTGTCTCCACAG
Seq C2 exon
GGTGCCGTGAATCTGCACATGGAAGAAGAGGTTGAAGACTTCTTACTTAAGAACCCTATTGTGCCTACTGATGGCAAGCGTGTCATTGTCGTGTTCCACTGTGAGTTTTCCTCTGAAAGAGGCCCTCGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032477:ENSMUST00000094324:12
Average complexity
IR
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:
ATGGCATCTGTTTTGAATGGCA
R:
ATTCGAGGGCCTCTTTCAGAG
Band lengths:
230-810
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types