Special

MmuINT0063422 @ mm10

Intron Retention

Gene
ENSMUSG00000090173 | Fbxw10
Description
F-box and WD-40 domain protein 10 [Source:MGI Symbol;Acc:MGI:3052463]
Coordinates
chr11:62847132-62850742:+
Coord C1 exon
chr11:62847132-62847795
Coord A exon
chr11:62847796-62850571
Coord C2 exon
chr11:62850572-62850742
Length
2776 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GTCTACTCTTTGTCCTTCAGGCC
3' ss Score
9.65
Exon sequences
Seq C1 exon
TACCATCCATCGCAGTGCCTTACGGTTTCTCCAGATGTTCATCCCGAAGAGGCTCCAAAAAGGCTATTTCTCTGCTTACCCTGTCCCTCTGGTGTTTGGTGGGGTTGCTAACGGGCAAGGTTTAAATGAACTGAATGTCATCTCAGAGTCATGGAAAACAGGGAACCAAAACTCAAGCAGGCCCCCTATTTTCGTTGTGAAAAGGGACCCAACTGGGTCCCCGTGTGCCAGAAGTGTGAAGCCTGTGTCTTAGCATGGAAGATCTTTGCCACCAAAGAGTGGTTCCGGAGGGTCAACGACATATCCCAGAGGAGATTTCTAGTCAGCATCTTGGGGCAGTTAAATAGCCTGTATTTGTTACAGTATTTCCAGAATATCCTAGAGACCACCCAGGGGAAGGACTTCATCTACAACAGGTCTCGGATCAAACTCAGTAGGAAGGGGGGGAAGGAGGAGGAGGTTGTAAAGTCCTCCTTGAACCAGATGTTGGATAAAACGGTGGAACGGAAGATGAAGGAGATCCTCTACTGGTTTGGCAACAGCACCCACCGAACTAAGGCAAATTATACTCTCTTGCTGCTGCAGATGTGCGACTCAAATTTACTGCTCACTGCTGCCAATGTGATCAGAGTCCTGTTCATGAAAGAGTGGAACAGTATTTCAG
Seq A exon
GTGAGAGCAGAGGGCCCCAGAGACCAGACACAGGCTTGGAAGGGGGCATAGGTGCAGACAGACAGGCTTGGAAAGGCAGAGGCTGCCCAGAGGGCTGGTATGGGACTGTGAACCTTATCCTGACATCCTATCACTTACCAAAGGAGGAGCTGCTGAGTGGTACTTCATTCTAGAAAACTGTCCACTGAGAAAAGCAGAAGGAAGGACAGAGCTTTCACCCCGGCACTGAACAGTATCCTGCCTGCCTTGGGCCCAGATCACTGCAAACGGGTGTCACTTCTTCCTTGCACTAGGGTAGGAGGGATGTGACAGGGAAGCTGTGTTTTGTTTCTTAACTGCCATGGGCAGAAACCAGGCCAAACAACAAAACTTACAGCTTTAAAAAAGTCTTATCTTACCATGCCGCTTGCTTAAGCATGAAACCAAATCTTAGTAAGATACTTTAAGAGGCCAAATGTGGCTAAAAGTCCAAAATTGCCCAGGGTACTAGTTTATAAGCAATAGTTTGCACCTGAGTCTCCAAACAGATTAGATTAACAAAAAAAAAAAAAAACCAGACTGTGGTCCTCTGCCAAAGCCTGGCCTAGCAGCTGGTCTGAGACCATGTCAAGCTGTCTGTTTCTGGCTATATAGACAGACATTGCTGGACCCAGCGGGGAACCTTCTTGGTCCTGGGTATTGACAGGAAAGTGTTGAAAGTGTTTGACTGGCTGGTTCTGGACAGCAAAAGAAAGCAGAGGAGAGGTCTGAGACCTGCAATTAGGAGAGGTCAGAGGTCAGAGGTCAGAGACCTACAAAGGTCTAGAAGGTTTAGCCAGAGGTGGGTAAAGAGTGGGAGGGGTGGTCTCTAGGGGGAATTTTCAAGTTTGAGCTCTGAAAGGTGAGTAATTCCTGGTCCCGAAGGATATTTGAGTTGTGGTCAAACTTGTAGACTAATGAGTCCCTCCCTGCTTCACAGATAGGGTTTGCTTTTCTTGGCTGGCTTAGAAACTTAAGCCCTTTCCTCCTCAGTCTTCCAAGTCCTGAGATTACAGGCATGATTTTTAAAGGAATGCCAAAGCTAGGTAATCTAGGATGCAATTAGATCCTTACACAGGAAACCGATTGGTTTCTTTAGTTTTGGGGGGTTTTTTGATATATTTATTTGTATTTTGTGTTTTTTCCTATGGGTATGTATGTGCATCAAGTGTATGTCATATGCCTGTGGAGATCAAATGAAGGAGTCAGAACCCCCTGGGACTAGAGTTACAAACTGTCCTGAGCTGCCACCTGAGTTTGAGGAGCCAAGCCTCAGTCCCCTGCAAGAGCAGCTGAGCCATCTGTCCAGCCCCTCTCTTTGTATCTTTGGTATCAAGGACGTAAAGGGTCACAGGGACACTTGTGAAAAAGCGAGAGAATCCAAGGGTACTAAAGCTAAGATTAGTTAGTGTGCGGCTCCCTAAGTCTGGGGAATATGGTTACCCAGCAAGGCAGCAGAAAGCCTGCATCAGCCCCCAGCGTCCTCCACTGCAGTGTGCTCTACTGTGCAATGGGCATGCCATGCCCATACCTCTCTTGGGATGGCTCCATCTCATGCTGTAGGAATCCGCTGTTTACATTGGGGCTGTGTAAGCCTAGTTATAGATTGTGGCAAGTTTCTTCATAGGAGAGCGTCTCTCTTAATATGTTAAAAGTTCTGGGGCTGGAGAGATGGTTCTGTAGTTAAGGGATGGCTCTGGTTTGCAGATGTCTCTTCTGAAACCCCAGGGCATCTGCACTTAAGCGTACATATCTCCACACTGAGATATAATTAAAAATAATAAAAACAGATATTTTTAAAGAGTTGTGATTTCTAATCTGATACAGGGACAGTTATATGTTGAAGGAAATCAGTCAGAGCATCAGAAGAAAGCGGCCCTTCCTGCAGCACCTTCTATGCATCTTTACGCAAAGAGTGCTAGTGAAATCCACAACATAGATTTGCTGGCAGGGCCTCAGTGGAGGCTTTCTAGGAATTTTTAATTGGAAACGCAGAGGCCTTGAATCAGAACAGCAAGCCTCTGTCTCTCTTCTTGTGGGACTGAGCAACTGCTAGATTCTTGGACTTCCATTCACAGATGCTTCTGACCATTGTTGGGAAGTTGGACTACAGAATCTCCCAAATGACATTCATGATTCAAAAAGAAGAAGGAGGAGAAGGAGAAGGAGTAGAAGGGAGTGGGGGAGGAGGAGGAGGAGAAGGAGGAGGAGGAGGAGGAGGAGAAGGAGAAGAATTATTGAAGAGTTTTACTTGAAGAAGACACTAAGAACCTGGAAATACATGAACCAGAAGACAGTCTACAGAAGAGCAAGCCTCTGCTTTCTTTTACATACATCCTTGTCTCTATAACTGTCTTTGTGTGTGTGTTGGGGTGGGGGTGTTGATTCCAGGCCCTCAGTATTCATAGATGCTCATGTTCTTTTTAACATAAAATAATCTTATATTTGTACAGAACCTATGTAGCTCTTCCTGGAATGTTAAAGTGTCTCTGGCTCATTTATAAAGCCATTACAGACCCGGTGCTACGGCCACTGCTAAGCTGTACTGTTCATTGACTAGTGACCAAAACTCCCTGCTTGTTTGCTGCAGATTTGGGTTTTTAATTTTTATTATCAGTTTGAGGTTGATTGGATCCAAGACATTCAGGAAATCGGCTATATTCAAACAGAATGAGGAAGGATAAGACCTTTTCTCTCTACCTCATTTCCCTCCACACACTTCCTTCAAAAGCAAATGTGTCTACTCTTTGTCCTTCAG
Seq C2 exon
GCCTTCATGATGACACTCCTGATGTGATGTTCTTCCCTGAGAAAAAGTACAGCGGTACACAGGACACCTCATATGTCTCTTGGGCAGCTAGACCCAAACCTGTGTCATTCCCAATGTCCAAACATTTAGGTAATAAACTCGGGACTGAAAATGTGGACAGAGAAACAACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000090173:ENSMUST00000176577:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion (1st CDS intron)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.012 A=NA C2=0.207
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000046156





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000117872, ENSMUSP00000135294, ENSMUSP00000135870
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr17:15615810-15619007 
Human
(hg19)
chr17:15519124-15522321 
HsaINT0032826
(CDRT1)
Rat
(rn6)
chr10:49259708-49263159 
LOW PSI
RnoINT0060042
(Fbxw10)
Cow
(bosTau6)
chr19:33623487-33627005 
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
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
  • 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





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