Special

MmuINT0119179 @ mm9

Intron Retention

Gene
ENSMUSG00000027088 | Phospho2
Description
phosphatase, orphan 2 [Source:MGI Symbol;Acc:MGI:1920623]
Coordinates
chr2:69630394-69635225:+
Coord C1 exon
chr2:69630394-69630548
Coord A exon
chr2:69630549-69633532
Coord C2 exon
chr2:69633533-69635225
Length
2984 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
TAACATATCTTCTCTTTCAGGGT
3' ss Score
11.11
Exon sequences
Seq C1 exon
GAGTTAAAAAGTCTTTGTTCCTTTGCTGCATATCAGAGCAATTTCTCTGCATACAGAACTGGAGTAATGTTTACAAACAGCTGGCAAATTGAAGACTGCAGTGGCCTAACCTCTGTGCTGAAGTAGCATTAATTGGACTGCAAGTACCAGTTTGG
Seq A exon
GTAAGTGGTTTTAATAAAAAATATGTTTACAAGACAGGAAAAAAATCTAAAATTGAGAAAAAAATACTCTTAGATTAACTTTAAATGTGAGTTTACTTCACTCATATTCTTCTCAGCCTGGTCTGTTGAGTGAGTTCCCGGACAGCCAGGCTACACAGAGAAACTCTGTTTCAAAAAACCAACCAAATTTTAAAAATTCACTAATTTGTTAGGGAAAATTTTTCTTTTAATATGGTGCTGGAGATAAAACTGAGGTGTCGCACATGTTAGGCAGTCTCTCCCTCTGAACTATGTATACATCCCTAGAAAACTTTTTAAAATCATACTCTGTGAATCTCCATAAGGTATGTGTGGTAGTTTGAATATGGTTGGCCCATGGGAAGTGATGCTATTAGAAGGTGTGGCCTTATTGGAGGAAGTGCATCACTGTGGGGGTGGACTTTGAAGCTCCACCTGGTGTGGATGTGACCTTCCTCGGCTGCCTAGAAAACGGCCTTCTGTTTGCTTTTGGGATAGGATATAGTACTCTCAGCTCCTCCAGCATCATGCCTGCCTGGACACTGGCATTCTTCCCACCATGGTGATAATGGACGAGACCTCAGAACCTGTGAGGCAGCCGCCATCCCCAGTTAAATGTTGTGCTTTATAAAAGTTGCGTTGGTCATGGTGTCTCCTCATAGCAATGGAAGCCCTAAGGCAGTATATTTAATTTAAATGTTCTTTTTTGTGGGGGAGGGGAGGGTTCAAGACATGGATTTTTCAAGTAGCTCTGGCTGTCCTGGTACTCACCCTATAGACCAGGCTGGCCTTGAACTCAGATCTCTCTGCCTCTGCTGGAATTAAAAGGGTGTGCCACCACTGCCTAGTTAACTGAAATGTTCTTAAGTGATCAGTGATCATCAGTTTTGCCTCACTGTTGTTGTTTGGTTGGTTGGTTGGTTTTTGGTTTTTTGAGACAAGGTTTCTCTGTAGCCTTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGCACCACCATGTCCGGCTCGTCTCACTGTTATTTACTGAATTATTTGTATGTGAGAGTGAGTTTCCCACTTAAACCTCTGGCAGCCAATGATACCTGGATTAGATATTTAGAAACACAAAACTCACATGCCAGAACATAGTATGGCATCTAAATTCATACCAACAGCTGGGTATGTTGGTTCATGCCTGGAATCCCAGCACATACGAGGCTAAACAGGAGAATCACAAGTTTAAGGACAGCCTGGGCTCCAGACAGAGCTCTGTCTCAGAAACCTCCCCTCACCAATAACATCAAACCCAGGAAGTTCACATAAGAGGAGATTCCCCTCTAGGCTCTACATTCCCTGCATACCATAAAGTGACAGAATGCTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTCATGTGTGTGTTCTATCTTTACTACTAATTAGCTTCTTTAATAAGCCAGAAATTACTTTAGCTACATACCATGTTTTCTATTTTTAATTGATTTCTGTATCTTTTTCCTATTTTGGATCCTTTACTTTTTAAAATTTCTAAAATTATAACATGATTACAGTTTGTTAGTGTGTACTTTAAGGTTAATGAGGATTTTTTTTTAAGATTTATTTATTTTTGTATATGAGTGTTCTGTCTGCGTGCCACCTGGATGCCAGAAGAGGGCATCAGATCTCATTACAGATGGTTGTGAGTTACCATATGTTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGCTAGTGCTCTTAATCACGGAGCCATCTCTCCAGCCCTGAGGATTTTTACTTATCTTTTTGTTAAAATTAACCTACTTGGAGCTGGGCTTGGTGGTGCACGCCTTTAATCCCAGCATTCAGGAGGCAGAGCCAAGTGGGTCTCTGAGTTCAAGGCCAGCCTGGTCTACAAAATGAGTTTCGGGATAGCCAGGACTAACTATACAGGGAAACCTCATATCAAAAAACAAACAACCAAACCAAACAAACAAACAAAAAACAATAATATTTAGTCATAACATTGACATTTAGAAATTGAGTTCAATCTGAACGCCAATTAAAATTATTTTACATTTTATAGAGTTACATAACTTAAATTTGTTCAGAACTTTTGTTAATATATAGAATAGCTATAGTATATTATGGCCTCTTACTTTAATAATGATGATTATTACAACTAGTATAAGCTAATAAAATAACTGTAGTGGTTCTCTTAGGAAAAATAAGCGATGGTCCTAAAAAAAAAGCTTAATTGGGAGCTAGAGAGGTGGCTCACTGGGTAGGAGTCCTTAACTGCTTTTTCAGAGGACCTAGGTTCAATTTCTGTGGCCCACGTGACAGTTCACAATCAGTAACCCCAGTTCTGGGGATCCAAAGATCTTTTCTGACCTCCTTGGGCACCAAGTACAGTTTTGGTGCATATAACATATATAAGCAGAAAAAATTAATTTTTTACAGCATAATAAGAGCTAAGTGTGGTAGCGTGTACCTTTAATGAAAGCACTTGGGAAGCAGAAGCAAGTGGTTGCTCTTCAGTTCCAGGCCTTTTCTACATAGAATGGTCCAGACTAGCCAGGGGTAGATAGTGAGTGAGACTCCCATTTCAGGAAAAACAAAAAACATGGTAAGATACCAATTTCTACTTCTTGTTTTAGCATGTTAACTAGTTTATACATACATACATATACATATATACACATATACATATATACATATATATTAGGTAAATTCTCATTGTATAGCCAGGTCAGCCTCAACCTCTTGTTCTTTCTGCTGCAGCCTCTTAAGTGCTAAGGTGACAGACACGTGCTACCACACCCAGCTCTTATTGGGTTAGCATTGGCTTCTCTTAAATCAGTATAATAGATATGTAAACATAGTGTGTTTAGGGAATAACATATCTTCTCTTTCAG
Seq C2 exon
GGTAACCCAAGTCTGTTCCTGGAACCATGAAAGTTCTGTTGGTGTTTGACTTTGACAATACAATCATAGACGACAACAGTGACACCTGGATTGTACAGTGTGCTCCAGACAAAAAGCTTCCCATTGAGCTACAAGATTCTTATCAAAAGGGGCTTTGGACAGAATTTATGGGCAGAGTCTTTAAATATTTGAGAGATGAGGGGGTAAAAGCAGATGAACTGAAGAGGGCAGTGACTTCACTGCCCTTCACCTCAGGGATGATAGAACTTCTCAGCTTCCTGAGGATGAATAAGGACAGATTTGACTGCATCATCATTTCGGATTCAAATTCCATCTTCATAGACTGGGTTCTAGAAGCTGCTGCCTTTCACGATGTCTTTGATCACGTGTTTACCAATCCAGCATCCTTTGATAGCAGTGGTCGTCTCACAGTGAAAAATTACCATGCTCATTCTTGCACTAGGTGCCCAAAGAATCTTTGCAAAAATACAGTTTTGGGAGAATTTATAGATAAACAGTTACAAAAGGGCGTGAGATATACACGGATTGTTTATATAGGTGATGGTGGAAATGATGTCTGCCCAGTAACTTTTTTAAAGAAAAATGATGTTGCCATGCCACGGGAAGGATATACTTTACATAGAACTCTTGCCAAAATGTCTCAAAATCTTGAGCCTATGGAATCTTCTATTGTAGTTTGGTCTTCAGGTGTTGAAATAATTTCTCATTTACAATTTCTAATAAAGATGTGATATGCCAACAATTGAAAGGTGTATTAGTTGAGGTTGGGCTCGGCAACATAAAACTAAATTCCCAATATTAGAACCTTTAAAAATGTGAGAGGTTTTCCTCTTTAAAGAATTCTGGTGGTATGTCAAGGCCACTTCGTTGCTCAGCCAATCTCAGCTTCTGCTTCTAACCCCGTGATTTGAAATTGATATCTAAAGCTCAAGTCCTCACAACAGACATTGTGACCAGCAAGAATCAGGGCCATAGGATTTTTACCCTTTGTTCAGGAATGTTTTCCAATTGTACCAAACAGTTCTGTTTGAATACCACTAGCCAAAACCTGGTCAGAGCCTTCCCTAACTGCACAGATGGGAAATGCAGCTTTCATTCCAGGTAGTCCTGTGCCCAGGAAAAAGAGGAAAAACAAAATACATAATTGAGGTATGTGGAGCTCATAGTCTATACTAAGGATGGTTAATAGATTGTTTTGTTTTTATTTCTGAAGAAAGTGGCTTTATTTTACTTTTTATGAAATAGTTACAAATGTTGAAAGTAGCTCATGAGCTCTCTTCCCCTGATGTCAAGTCATGAAGAGACCCAAGTGTGTTCAAGATTCAGCTTCACCCACAACCCGCTAGGACTGAGGAAGGCATTATTGCTGGAGGTGTAATGGATCTTACTGCCTAACAGGAGCACTGAAGACTGCCTTCATCCAAGAGGGCCCAGCATGGGGATATACGCCTTGGATCATCGCTGCCAAAGCCTTAGGCAAGTGCATGCTTGAACCCTATTGTGATGAGCGTCAAGTTGGTGGAGAAGCTTTGTGCTGAGCCTGAAGATCAAACTAATCAGGCATCTGTGAAAAAAAGAGAGAAAACCCTAGAGACTTGGTTGTGGTGTGTTAAGGATGCCAACTGAAGACTACTTCAAATGCAAGAAATAAAACTGGCTTTATTTTCTCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027088-Phospho2:NM_028521:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
5' UTR





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
NA

							
C2:
PF068887=Put_Phosphatase=WD(100=97.9)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000028494, ENSMUSP00000107885, ENSMUSP00000118021
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr2:169697532-169700945 
ALTERNATIVE
HsaINT0124384
(PHOSPHO2)
Human
(hg19)
chr2:170554042-170557455 
ALTERNATIVE
HsaINT0124384
(PHOSPHO2)
Rat
(rn6)
chr3:56033577-56036327 
ALTERNATIVE
RnoINT0110701
(Phospho2)
Cow
(bosTau6)
chr2:26661558-26664023 
LOW PSI
BtaINT0111109
(PHOSPHO2)
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
  • 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"