Special

MmuINT0130076 @ mm9

Intron Retention

Gene
ENSMUSG00000030359 | Pzp
Description
pregnancy zone protein [Source:MGI Symbol;Acc:MGI:87854]
Coordinates
chr6:128462174-128463915:-
Coord C1 exon
chr6:128463754-128463915
Coord A exon
chr6:128462402-128463753
Coord C2 exon
chr6:128462174-128462401
Length
1352 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
CTTGTTCATTTTCCTATTAGGTC
3' ss Score
9.31
Exon sequences
Seq C1 exon
GTTCTTCTTGTTGATGAGAAGGGTAAACCAATCCCCAACAAAAACATAACTTCCGTCGTGTCTCCACTTGGGTACCTGTCCATTTTTACTACGGATGAGCATGGCTTGGCTAACATTTCCATTGACACTTCCAACTTCACAGCTCCGTTTTTGAGAGTTGTG
Seq A exon
GTAAGTAGAAATGGGCATGCGCGACTGAAAAGGCTTAGGTCACAGGATGTGTGAGGGGAAGGTACATGAACTCCAGGTGCAGAAGAAAATGTGACAGGAAATAAATCAAACTGAGCAATGTGGGAACAGGGAAGGGAAGGCAGAAAGTTCTGTGTCAGGGACACTTGCAGGAGGCTCTGCCTTCTGAGACACTGGAAAGATTCTCCTGGGATTGCCTGGGAGTTTTTGGTATTTTCATAGTTCTATTACCAGTTAGACTATACCTAATTCTTTTATCATAATACAATTGCTGTTTGTGCTCAAACAGTCAAATAATCTTATGCAATAAAGCCGTAAAAAGATAGGGCAGTAGCTACCTACACAAGACCTGTCTACAAGGCTGGACCTAGCATAAGAGATGGGAAAGTGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAATTGCAAGGCCCTGGGTTCGGTCCTCAGCTCTGGAGAGAGAGAGAGAGAGGAACTCAGAAGGCCCCACCCCTGGCAGCTATCTGATATGAAACCCCTGTGGAAGAGTTGTTTGACACCTCCCTCCCAAAGGGGTTGCAACCCACAAGTTACAAAACACTGAGCTGTCAGGGGAGAGGTAAGCCATGTTCCTCAGTGATGTAGCCATGGGTACATTGCCCCCACTCAATCAAACGACCCACAACACATACTCATGAGACAACCCTAATTTTAAATGCAATGGGTCACACACCCAAAAAAAGGCACAATAGGAGAGAAACTCTGGAAGAAGAGACACTCTGGGATCAGTATTAGGATAAAAAAGATTCATGGGGAACTCGGTTTAAAAAAAAATGTGTGTGAAATATGGTAAGTAAAATAATTGCTCATATGTGCAATTAATGAAATAACTCTGAACAGAAAACGTGTACAGAAAACGTGTACATGGGCTTTGCAAGTGTAGTGAGCATTTCTTAATCCCAGCACTCAGGATGCAGAAGCAAGAAGACTGTGAGTTTTAAAGCCACCCTGAGATACAAAAGTTTAAGTAATCTTAATAGGAAGGTAGGAAAGTGGGTATAAATTTAAGAAAAAAACCTTTTTACAAAAAGATATATAAGTAAGTGATCAATGGATAGAGAGATGGATAGATAGGTGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGGGTGAGTGGGTAGGTGGGTGAATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATAGATGATAAACAGACAAACACTAAATACAAATGTCTTGTTCATTTTCCTATTAG
Seq C2 exon
GTCACCTACAAGCAGAACCATGTCTGCTATGATAACTGGTGGCTTGATGAATTTCACACACAGGCAGACCATTCTGCAACTCTAGTCTTTTCTCCAAGCCAGAGTTATATTCAACTTGAACTTGTTTTTGGTACTTTGGCCTGTGGGCAAACTCAGGAGATTCGGATACACTACCTCTTGAATGAAGATATCATGAAGAATGAAAAAGACTTAACCTTTTACTATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030359-Pzp:NM_007376:11
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:
PF077039=A2M_N_2=PU(26.2=51.3)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000032510





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000107760
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr12:9415354-9416301 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr5:101230619-101231173 
LOW PSI
BtaINT0007439
([1])
Chicken
(galGal4)
chr1:75733502-75733795 
LOW PSI
GgaINT0103744
([2])
Chicken
(galGal3)
chr1:79438296-79438695 
GgaINT0112580
(A2M)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GTTCTTCTTGTTGATGAGAAGGGT

				
R: 
CAAGAGGTAGTGTATCCGAATCTCC

				
Band lengths: 
342-1694

			

		

	





	
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






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