Special

MmuINT0119760 @ mm9

Intron Retention

Gene
ENSMUSG00000030228 | Pik3c2g
Description
phosphatidylinositol 3-kinase, C2 domain containing, gamma polypeptide [Source:MGI Symbol;Acc:MGI:1203730]
Coordinates
chr6:139566424-139571086:+
Coord C1 exon
chr6:139566424-139566681
Coord A exon
chr6:139566682-139570332
Coord C2 exon
chr6:139570333-139571086
Length
3651 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATC
5' ss Score
7.46
3' ss Seq
CTTTTGTTTTTTTTTTCTAGGAA
3' ss Score
12.36
Exon sequences
Seq C1 exon
TTGCTGTGTTAAGTCTCACAGATGGCCATTTAGGAATAAAGCATTGGTTTTAGCTCACAGTTCAAAGCAGAGTCCATCATGATTGGGAGCTGAGGCAACTCGGCCACACCCCTTCCACAAGCAACAATGGAAGGATACATAAATGGATTCTGCTTCTTGGATCCTTTTCTCCAATTCTCCAAAGTTCAATAATAATCCATTTATGGAATGGAGCCACCCACGGTAGGCGGGAGGTCCTCATCAATTAGCACAACCAAG
Seq A exon
GTAATCTTTCAAAGCATGGCCAGAAAACCTTCCATCAATTGATAAGATTGGGGAGGTCCAGGCACTAACCGTAATGACCACCCCACATTTACTCGGGTGAGAAGGGATGATTCCCAAGCCCATCTCATGGCCATCTCTCCTTCCTTGGCTTTCTATTGTTTAATTCGCAGGCTCATTTGTGTCGCCAATACAAATGAGCATTGCGGTAGGTGAAGGGAGCAGCGTTGTAGGTACTGAGCAATAAGGAAAGCAAAAGAGCTGATGGGAGGAGAGAACAGGGAAGTGTCACGTGGGATGGCAGTGTAGTCAGTGCCACGGGAAGAGAAAAATGTGGGTGATGCTGTGTAGCCTAAGCTAGTCAGGAGCATTGTCTTTTCTCTGTTAAAATAAATAAATAGATAGCATGGACATTGGTGGCTCGTGTCTATAAACCTGGATGAGAAGAGGGGGATAAAACAAAAACAAACAAACAAAAACCTCTGTGAGGTCATCCTGGGCCATCCATGTGGTCCAGAGCTAGACCTGCTTAGAGAGTGAGATGAGAGATGCAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGAAAGTTTGCCTAAGCCCTGATTGATGATTGTAGTGTGAAGGAATAATGCAGTTAGAAGGTGAGAGCATCCAGCCAAACCCAGGGAAATACCATCAGGAGCGAGGAGACCCATCCTGCCCACAGTTCTGGAGCCACCATGTGATGCGCCACACAGAAGGCAACTGAGTGACATAATGTGAGCTAAGAGGGAGCCCAGAGCCAGGCCATGCAGGATCTTAACAATCGTGTGGAAAATCACTGAAAATCCTGTAACCATGGGAATATGCTGTTAGTGTCTGAAATAAAACCTTAAACTGTGAAGGAAAATGAGGTCCAAAATGGGTTGCAGAGAATGCAGAGGCGGTTTGAGGGTAATATATTTCAGGGGAAGGCTGATGGCTTTAAATTGGGAGTGGACAGTGGCATACAGGAGACAGGGAGCTAGACTCGAGATGTGTTCCTATGAGAAACCAGCTGGTGGATCTTAGGACATGGGAGAATAAAGGAGAGAGAAGATTGGAAGATGAAACCTTGGTGTCTGGCTTAAGGGCTGGGTGGATGATGCCATTTAGTGCATAAAGAACAATGGAATATAAGTTGAATCTTCAGTAATTGAGATTTAACAAGCAGCTAAACTCATTCATTTTATAATGAAAATGTAACAAAATACCAAACTAGCACAAAAGAAAAGTCATTACTGTCATCTTAACTAAATATTGCTATGGAGTAGCTTAGAGAATTTAGCTGAAAAATTTCCAGTGTATTTTGAAGGGTCATTTTACACAGCCTATTTAGGCATTCAGATAGATGTGAATAACAATTTGCCAAAAGCATGCAAATTAATTATCCTGACTTTTAATTTTACCAAGTATCATAAGTGGTTTTGAACTTTATATGAATGTCACAATAAAAACAGAATGAATGGAAACACTAAGTAGGTTAAGTGATCCTCGGTGACATCATGGAAAGCAGGTGATAATTTGAACCACAGAGCAGGGCTGCAGAGATGGATCTGTGTCTGAGCATGCTTGCTGTTCTTGCAAAGGCCTAAGTTCAGTCCTGAGTGCCCACAAACAGGTGGCCCACACCTGCCTGTAACTTCAACTTCAGGGTATATGAAGCACTCTTCTGATCTCCACAGGTATCCTCACACATACCCACACCCAGATACCCACATACAAAACTACCTAAAGTCAATCTCTAGACCATGGAAGAAATGAATAGCCTACACAAGAGAATAACACAGGAGAAAATGAACTCCTGAAAGGACCAAGAAGAAAACAGTGAATTTGTAAAGGGGTGCTTGAGAAATAACAGAAAGGATTCTGAGTGTGGCTAATGAAAGATCCTGACAGAATGTAAAAGGACACAGGAGCCCTGAAATTGGCAAGATAGATGTCACTGTTGGCAGAACTAGTTTCACTGATTTAGAAAAATAGAGGTGCACAATGCTCTGGCTACTCCTTGAACCCGTGTGTCTGCCAATGTTTTGACTGTTCCTTGACCCATGTGTGTGCCCATTGATGAAGCCCATTGCCAGGTGTTTGTGATATTAGTTGCTGAGAAAGAGTCAGAAAATCTCCCCAGCAACCACAGCCCGGCCAATCCTGAGTTGCTACACCTGCACCAGACTCTTTCCTTGTACCCCTCCCATACCCATTTCTTGAGAATAGACATTGTTTAGATCTGGAAATCCCCTACTCTCCCCCTTTTCCTTTCCCCCCTGAGGGCCTATAAAAACTGGGACCTCTTTCCCCTCAAGGTTGACTCCTCTACCCCTGCGTGGGATCTGAGTTGTCCCCAGAGCTCTGGCTTTCCCCAATAAAGCCTCATGTGATTTGCAACAAGCTCGATCTATCGTGAGTTCTTGGGTGTCCGCTATTGTCCCGAGGCCTGAGTGAGGGGCTCCTTTCGGAGTCTTTCACTACCAGGAAGGAGCAAAAGGATGAGCAAGACACAGGAACGAAGGAATGGAGAATACCTAGCAAACTTTGCAATGGACCAAAGTGTTTTCAAAATGGAGAGAATTTAATGGCATGAAACTCATCTGTTGCCTCCTGTTCAGACCAGCAGAAAGGAGCGATGACACAGCATTCTTCTCAAAGAAGTTTATTCAGGAACCTTTCAACATGCATGCAGGAAAATCTCTCTCCCCTGCAATCGCAATCGCAATCCCTTTTATAACCCCATCAGCCCAGTCCACGTAACAGCAGTCCATTGGCCAGAATTATCACTTGTCATAGTCCGATCTTGCATCATGGTGCACCTGCGCAGTTTACCCAGTGGACGTGGCTTAATCAGGGTGTTTGAGGAAGTCAGGTGCAAGTCATGAGACTTGGCTGCAGTCCCAGGCGCCATCTTGGGACTGCTGCCACACCCCTTCCTCACACTCATCAAAGTGTTTAATGAAAGTAGTTCTAGAGAAGGGGATAAACGAATTTGCAATTACTTATTCTTAAGGAGTTTTGGAGGGAAAGTCTAACTACTGAAGGAGGGAAACAATTGAGACTGTGCACATGACTGGGTTAATAAGGAGAAGACTGTTAAGCTACTACTAGGCATGCGCATGCGAGTACACACAGGTTGAGAGGCTAAGGAAACACTGACCTCAGAAGAACAGTCAGTTCAAGAGCAGATGGGTTCTGTATGGATTAAAGGGACCCTTGGGTTGGAGGGATTGCTCAGTGGTTAGGAGCATGGCTGCTCTCCTACAAGACTGTGGTTGAGTTCCTAGCACCTGTATGGTGGCTTGCAGCTGTCTGGAGCTCCAGTTCTGGGGGACCTTTTGTCCTCTTGTTATGACCTAAACACCAGGGACACAAGGGTGCACATACACAAAATAATAGAGATAAAAAAAGATGTGAGGAAGACTTGTTATCTATCAAAAGAATAGTATGAATCCATCCAGTCAGTATTCTCCTTTAGATTCTCTGTGCTTTAGCCCTGATGGACTAAGTTACTACTCACCAGCCAAGTGAGCAACCCAAGCACTTGCCTATTTCCTTAACATGTTTTTTCTTGAGACTGCCTGTGTCACTAAAGACCAATTTTTGTTATATTTCTTTTGTTTTTTTTTTCTAG
Seq C2 exon
GAAAATTTAGAATTTCTTTTATAATATCAAGAAGACATTTGGAGCCAAATAAATCCTCTGTTACACAAAATCAAAAATGGCATACAGTTGGCAAACAGAGCCAAATCGCACTGAACCACAGGAAGATGGATCTGATACCCAACAATTTCACCATACAAACCAGCACCTTTCTTCCAGTCAAGTCAGGTTGGGTTTTGATCAGCTGGTGGAAGAGATCAATAATAAGACTCCACTGTCTGAGAGTGAAAAGGAAGAAGACACGTATTTTGTGCCAGATGCACCAAACTTGGGTTCAAAATGGCCATCCATATATGAAACACACCCAAGATACTTCAGTGAATTCACTTCTCAGAGCCCTGACTCCTCCCAGCTTCGGTTTGGAAAACTATCAGCCATTGGTTTTAATCCTGCTGTACTACCAACCCATCAGCTCATTCATGAGGGAGCTTCCTGGAGAAATCCCAGTGGAAAATATCATGGCATCGAGTATCCCAGATTCGATGCTCTACCTCCATCATCCACTGGCCAGGGTGAGTGTAATCCACAAGGACAATCAGGAACCAAACATCATAACTACTGTGGAGAACATGAAGGCAATCTCCCCCATCATCATTCATCCTACTCAATAGACTCCATACCGAATAGAGAGAAAAGAAGGAGTGGAGATGTGAACCTTGTAGAACCTTCTCTGGAGTTCTCTAAAGACTCCTTTCTACCCAGGACATCGGAGAACGTGTCAGTGGAAAGCACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030228-Pik3c2g:NM_207683:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
NA





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=NA A=NA C2=0.668
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000032353, ENSMUSP00000084939
  



Associated events






Conservation


Human
(hg38)
chr12:18261578-18282003 
ALTERNATIVE
HsaINT0124977
(PIK3C2G)
Human
(hg19)
chr12:18414512-18434937 
ALTERNATIVE
HsaINT0124977
(PIK3C2G)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr5:92277021-92277568 
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"