Special

MmuINT0121639 @ mm9

Intron Retention

Gene
ENSMUSG00000064247 | Plcxd1
Description
phosphatidylinositol-specific phospholipase C, X domain containing 1 [Source:MGI Symbol;Acc:MGI:2685422]
Coordinates
chr5:110530035-110530543:+
Coord C1 exon
chr5:110530035-110530124
Coord A exon
chr5:110530125-110530406
Coord C2 exon
chr5:110530407-110530543
Length
282 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GGTGACTTGCGTGTCCCCAGGGA
3' ss Score
7.75
Exon sequences
Seq C1 exon
CTGCAGCTCCCATGGGAGACCAGGCAGACTGGATGTCGCAGCTGTGCCCTCAGCTGTGGGATGTCCCCCTGCACCACCTGTCCATCCCAG
Seq A exon
GTGAGTACGGGGCCAACCTCACGTTCTCCGGATGCGGGGGCCAGGCTGAGATGGGGCTTCCGTGGGGGAGCTGTCAATCATTGTCAGTGGCTCTGGCTGTCTGACTTACTGGAGGAATGCGCCACTGACTGGGGTAGAGGGGCAGCTGGGGGGTGACAGGGGCTGGACACAGAGGCCTTAAGCCCCGCCCCTTCCAACTTGTCAGTCACAGGAGACCCTGACTACTTGGGGCTCCACGGGGCGTCAGGGGCGGGATATGACCGGTGACTTGCGTGTCCCCAG
Seq C2 exon
GGAGCCACGACACGATGACATACTGCCTGAACCGTAAGTCTCGGATCTCCCGTGCAAGTTCGTGGCTACTGCACCTGTTGGGCCGGGTCGTGCCATTCATCACCGGGCCCGTGGTGATGAAATGGTCGGTCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064247-Plcxd1:NM_207279:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.079 A=NA C2=0.028
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0038814=PI-PLC-X=PU(10.8=40.7)

							
A:
NA

							
C2:
PF0038814=PI-PLC-X=FE(26.0=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000083892





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000108153, ENSMUSP00000108154, ENSMUSP00000119248
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chrX:284315-288732 
ALTERNATIVE
HsaINT1027307
(PLCXD1)
Human
(hg19)
chrX:205347-205399 
Rat
(rn6)
chr12:52676993-52677045 
Cow
(bosTau6)
chrUn_GJ060118:1879-1942 
Chicken
(galGal4)
chr1:129434971-129439290 
ALTERNATIVE
GgaINT0116404
(PLCXD1)
Chicken
(galGal3)
chr1:134196435-134200754 
LOW PSI
GgaINT0116404
(Q5ZIV4_CHICK)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GACTGGATGTCGCAGCTGTG

				
R: 
TGACCGACCATTTCATCACCAC

				
Band lengths: 
196-478

			

		

	





	
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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