Special

MmuINT0130105 @ mm9

Intron Retention

Gene
ENSMUSG00000030359 | Pzp
Description
pregnancy zone protein [Source:MGI Symbol;Acc:MGI:87854]
Coordinates
chr6:128466091-128466948:-
Coord C1 exon
chr6:128466834-128466948
Coord A exon
chr6:128466201-128466833
Coord C2 exon
chr6:128466091-128466200
Length
633 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
TGTTTTGTTTTGTTTTTCAGGAA
3' ss Score
12.57
Exon sequences
Seq C1 exon
GCAGATGATAAAGGATGTTTCAGACAAGTTGTAAAAACCAAAGTATTCCAGCTCAGACAAAAAGGCCACGACATGAAGATAGAGGTGGAAGCCAAAATCAAAGAGGAAGGAACAG
Seq A exon
GTTTGTATTGGCTTGTTTGTTTTTTTTAAATAAATGTCAATCAAGCAGAAACTTATCAAACTTCCATTCCATTTTGAATACTTTATGGTGTCTGCATCTTGTGAAAGTGGCAGGTTGCCAACGTCAAGAAATAAAATATTTAACAACAGAAGGTGTGTGGGTGTGTTTGTGTGTATGTGTGTAACTGTGATAAATTTTCCGTAAGAAATATAAGATGTAAGAAGAGAGTGGTTGTAAAGGGAAGTAATTAATTCTAATGCAGAGGCAGAAGAGCGATTCTTAAGCTTGCACCTGATGTGCTTTGTGGAGGGAGCGTGATGCGTGGAAAGATGAGTGATGGGCTGAGAAAAGCAGGCAAGCACACTCATTCTCAGGATGGAGAATTCTGAACAGCATGGCTAGCTTCAGATGTATGTGATAATGACCTAAACGAACAGATACTTTAAAATAATGCTAACAAAAGATATACAGGAAAAATTAAATATGTGTTGGATATGATACCTCATAAAGTATTCACAGATTATTGTAGCATCCTATAGTAACAGAGGAGAGCTGAGGTGGAAGTAGAAAGTAAGTTTTGAATCCACAATACTGAATTCGTGGTGTTTTGTTTTGTTTTGTTTTGTTTTTCAG
Seq C2 exon
GAATAGAACTAACTGGTATTGGATCATGTGAAATAGCAAATGCCTTAAGCAAACTGAAATTTACTAAAGTAAATACAAATTACAGGCCTGGGCTACCTTTCTCTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030359-Pzp:NM_007376:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
No protein impact description available





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000032510





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000107760
  



Associated events






Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr12:9418347-9420594 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr5:101227094-101229656 
LOW PSI
BtaINT0007474
([1])
Chicken
(galGal4)
chr1:75797269-75797477 
GgaINT0112578
(OVST)
Chicken
(galGal3)
chr1:79439753-79439961 
GgaINT0112578
(A2M)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCAGATGATAAAGGATGTTTCAGACA

				
R: 
TCCAGAGAAAGGTAGCCCAGG

				
Band lengths: 
222-855

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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