Special

MmuINT0032756 @ mm9

Intron Retention

Gene
ENSMUSG00000044201 | Cdc25c
Description
cell division cycle 25 homolog C (S. pombe) [Source:MGI Symbol;Acc:MGI:88350]
Coordinates
chr18:34895025-34897932:-
Coord C1 exon
chr18:34897870-34897932
Coord A exon
chr18:34895124-34897869
Coord C2 exon
chr18:34895025-34895123
Length
2746 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TAATCATTCTTTGTGTGCAGGTG
3' ss Score
9.22
Exon sequences
Seq C1 exon
GTGTGTGTGCTGCCAACGGTGCCAGGGAAACACCCGGATCTGAAGTATATCAGCCCAGACACA
Seq A exon
GTAAGTACAATCTGGAGATGGCCACTGGTTAGATCATATTATCAGCCGCTGGCCTGTGCTCCCAACACCCACTTCAGTCTGTATGTCTTTCACTCTGTCCCTCTGTCCACTCTCATGGGCTCTTACTGGGCTGAAGCTGTATTGAAGGTTTCCTTTGTATCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTACAGATCTTGCCTGAGTTTATTTGTAAGAACAGCATAGGACACTGGTCATCTGCAAATAGTGTGCGGGGAGGTGTGTCACAGCAGCCCGTCTGTCTTTACACTGGCAGGAGCCTTTTCTATGGGGCCTTCACAGGGGCCTGGGCACCTTTGGGGGCCTGAGCACCTTTGGGAGCCTGGGCTGGAGTTGAAGCCTGGGCCTTAGCTGGAGCTTTGGCCCCTGCCTTGGTTTGGACCTTGGGCTTCGGTTGGCAGAGCCTCTGACCCTTGGCCATGTAGCTTCGAATCCGCTTCCCAAGCTTAGGGTGAGCGATAAAAGCCAGCCGCTTGAGTTTGGGGCCTTTTGGCATCTTGGGCTTGATGGCCTGAGGCTTCACCAGGGCCTTGATGGCCTCTGCGTGCACACTCACTGCCTTTGCATTGCTGGCCTGCATCTTCTCCAGGCCTTTCTTGTTGTGCTTCTTGGCAAAGCGCATGTTCCTCAGAAACTTGGGGTCAACCCCCTTAAGAGATTCGTATCTTTGCGACCGGGGTTTCTTGATGCCATTTCTGTGCCATTTGCGGGACTGGTTGTGTGTGGTGTGGTTCTTGGACTTGGCCATGTCTGCACGGTAACCCGCGGCCCCCGCAGCGCCTGAGACCGGAAGAGCTCCTTTGTATCTTTACTTTTCTTTTTCTTTTTTCTTTTTTGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAAGCTGGTCTTGATCTCAAAGATCTGCCTGCCTCTGCCTCCCAAATACTGGGCTTAAAGGTGTGTGCCACCACTGCTCAGCTCTAATTTCTGTCTTTTTAAATTTTTTACTTAAGGGGCTGAAGAGATGGATAAGCAGTTAAAAGCACCGGATGCTTGTCCAGAGGTCCTGAGTTCAGTTCCCAGCAACCCCATGGTGGCTCATAACCATCTGTAATGGGATCTGATGTCTTCCTCTGACATGCAGGTGTACATGCAGATAGAGCACTCATATACATAAAATAAATAAGCCTTTAAATTTTTTTTTTTAGTTAGACAAATGATGTATTATTATAAAGTAGAGAAGAGAAGGAAAACATAAAAAGAAGAAAAAAAAATCACTCAGTTGGGGTCTTAAAGCAGCCATGATTAATTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCACATACACACACACACACACACACACACAAGATGACTCTCTTGAGACAGTGTCTGATTCTCCTTTATCTTGACTGGTTGTAAATCACTATGTATTTGAGATGAGATGACTAATGACCTCAGATTTCTGAGCCTTTTGCCTGGACTTCCTGAGTGCTGGGATTACAAGCAGGTCCCACCACACCTGGTATAAGGAGAGCTGGCAGTGTTGCAGGGTAGAGGAAACAGGCTTAGTGTATGCACTGTACCACCTAAGGTACTCCAGCCTCCTACATTCCTCTTTCAGACAGGATCTGGCCTGGAACTTACAGTGTAGACCAGACTGGCCGTGATTATAGAGATCCACCTACCCAGTTTATAAAGAATAGAGTAACGGGGAACTTGGAGTGTTGCAGTTAATTTGGTGAGATCATTGTAAGAAGCCAAAGTGAGGCCAGCCAGGGCTGCATAGTAAGACCGAGTGTTAAGAAAAAAAAAGAAAAAAAAAAAAAGGTCAGGTGGTGGTGGCGGCACATACCTCTAATTCCAGTTCTTGGGAGACAGAGGATGGCAGATTCTGTGAGTTTGAGGCCAGCATGGTCTATGGAACAGAACCAGACAACCAGAGCTACACATAGAAATCCTGTCTCAAAAAACAAAAAGCAAACAGACAAAAATCTATGTTATTTTAATGGCTGTGTAATCTGTTATACCAGAATATACAATTTGTTTAACTAAATCCCCCTTAATGGATGTTTGAGTTGTTTGTAATATTTCAGAATCCTAGACAATGCTAAGATAATTATCAATTTGTGTGCTTTTACTTAAGGTGTTAGAAGAAATTGGGGATAGTGGTACATGCTTATAATCCCAGCAGTTAGGAGTTAGGGCCGGGAGGATCAAGAGTTCGGAGCTATCCTCTGGTACATAGTGAGTTTGAGGTCAGCCTGGGCTACTTAAGACTTTATCTCACAAAACAAAGATTTCAAGTATAATTCCATGTATTTTGTATGTATTTACAAAGTTCTCTATAGAAAGGCTGGACCAGTTTATTCTTCGGGATGTCCTCTTACATTGGGTTGTTTAACCACTAATACTTCTGCTACTGCTCTACTCCTTAGCTGCCTCGTTGGTCATGCCTTCCTCTGGATAGATAACCTCGGTATCAGCCATTTGGGTCCTCCCTCTACACAGGCCATCTTCATCTCACACTCGTATGTGGGATTAGGCTTCATCCATGTGCCGTGTTGCAAATACAGGCTACACTTGGAGGTTCTGCATATAGTACAATAATGGGAATATGCAGAAAGGAGCTGTGTGGCTCCTCTCTCAGAGCAACAGTGATCGATCGGGATATTTAATCATTCTTTGTGTGCAG
Seq C2 exon
GTGGCTGCTTTGCTGTCTGGAAAGTTCCAGAGTGTGATCGAGAGGTTTTATATCATTGATTGCCGCTATCCGTATGAGTACCTGGGAGGCCACATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044201-Cdc25c:NM_009860:11
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:
NO

							
A:
NA

							
C2:
PF0058115=Rhodanese=PU(25.0=81.8)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000055427





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr5:138287268-138289500 
ALTERNATIVE
HsaINT0031562
(CDC25C)
Human
(hg19)
chr5:137622957-137625189 
LOW PSI
HsaINT0031562
(CDC25C)
Rat
(rn6)
chr18:27532034-27534676 
ALTERNATIVE
RnoINT0032532
(Cdc25c)
Cow
(bosTau6)
chr7:51315896-51317182 
ALTERNATIVE
BtaINT0034929
(CDC25C)
Chicken
(galGal4)
chr2:575413-575509 
LOW PSI
GgaINT0090387
(CDC25A)
Chicken
(galGal3)
chr2:481617-481713 
LOW PSI
GgaINT0090387
(CDC25A)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Pre-implantation embryo development
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"