MmuINT0032725 @ mm10
Intron Retention
Gene
ENSMUSG00000032477 | Cdc25a
Description
cell division cycle 25A [Source:MGI Symbol;Acc:MGI:103198]
Coordinates
chr9:109875579-109877234:+
Coord C1 exon
chr9:109875579-109876159
Coord A exon
chr9:109876160-109877160
Coord C2 exon
chr9:109877161-109877234
Length
1001 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GGTGCCTCTCTTGGTTTCAGTGA
3' ss Score
7.08
Exon sequences
Seq C1 exon
CACTTTGGTGGTGAGGGAAGTGAAGGTTCCTTCTCTGCGAGCCGGCTACGGAGCAAGGAGGGAGAAAAAAAGTGAGGCGAGTTAGTCGGAGCGGTGGTCTCAAGACTCTTCCTCCACGGAGTTTGTTTGGATTTAATCTTGAGGTTGCAGGCGCCCGCCCGCCTGCGGGCCTCGCGGGACAGAGAGGGAAGCACCGGTGCTTGTGCCTGGCGCCTGCCGAGTCCCCTACGCTCGCCGGTCCGCGCCGCTGCCCGTGGCGGCCGCGTCTCTGAACCGCGGGGTCGTGTTTGTGTTTGACCCGCGGGCGCTGGTGGCGTGGCACGCGGCTGAAGCCGGTGCCAGCGGGGCGGGGCCCGGCGCAGCGGAGGCGGAGGAAGACGGAGCGGGAGTCCGGGCAGGCCCGGCGGCGCCATGGAACTGGGCCCGGAGCCCCCCCACCGCCGCCGCCTGTTCTTCGCTTGCAGCCCCACGCCTGCGCCGCAGCCCACGGGGAAGATGCTGTTTGGCGCGTCAGCTGCTGGCGGACTGTCCCCTGTCACCAACCTGACGGTCACCATGGACCAGCTGGAAGGACTGGGCAG
Seq A exon
GTGAGAGACCAGCGAGCGATGCCCCAGGCCGCTGGCCTCTGGTCGGCCCTCGGGATGATCCAGCAGGAAACAGAGTCTGTCCACTTGGTTCTGATGCTCCGACCCGGAATGGCCTGGCTAGGGCCCGCCATGTGCACCCTCCCTCCCGGGCGGAATGTTGGGCGGGAGAGGCCGTTCGGATAGTCCAGGGCTATCCTCAGCCAAGAGCCAGACCGCGGAGATCGAGGAAGCCTGCTGGGCATCCTGTCTTGTTCACCCCTTTCAGATTTCTCTCTACGCTGTCTCTATTCCAGAAAAGTCTTTGGAATCTACCCTTATGGGGGTTGGGAGGGAGGGTGAGAATGGGTCCTCCTAGGCCCTCTTTGCTGAACCACCCGCGCCGGATCTTAGTTTCCTGTAAGCTTTGTTCCTTCTCAACAAAGGGACGTGGCATTTTCTTTTCTTGCATTTGTGTAAAATCTATGCAGCCACCTGGCCGGCACGTTTCTTGTATCTACCCATCTACTACCTTTTTTAAGCTATCACTTTTTACCTAACTTTTCCATATTGGAAATCTTCGAGGACTTTGTAGTCCTACACCACTATCACTAACAAAAATGCTTAACACTATTTTTAGTGAAGTTGCTTTTCCTTCGATGTTGGGTATTTCGCCTCCTAAACTTGTCTTACAACTTTTGCAAACCCTGAAAAGCTGGGACTCCTGGCCTAGTCACCTTTGCCCTTACTCCTGGCTCACTCAGAACCTCAGACTGAGGCTCTCCTTTAAGGAAACCCAGCCCTTGCCACAGGCCTGTCTGACAATGTGGCCCAAGGCCAAACCACTCACTCCTTTCTTTGTTTAAATGCCAACTGGGGTATTCTGGGTGGCCAAGTGGGGTGTCCTTGGCTTGGTCTCTCAAAGATGGTTTGTGGCAGCCTGGCTACTTCGTGGCCTGTATGTCACCTTTTTTTTAATCATGTGCTAGAAATTGCTCATGTGGAGGTGCCTCTCTTGGTTTCAG
Seq C2 exon
TGACTGTGAGAAAATGGAAGTGAGAAATAACAGCAGTCTACAGAGAATGGGCTCCTCAGAATCGACCGATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032477:ENSMUST00000094324:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.732 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCGTGTTTGTGTTTGACCCG
R:
AGCCCATTCTCTGTAGACTGCT
Band lengths:
354-1355
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