Special

MmuINT0121640 @ mm9

Intron Retention

Gene
ENSMUSG00000064247 | Plcxd1
Description
phosphatidylinositol-specific phospholipase C, X domain containing 1 [Source:MGI Symbol;Acc:MGI:2685422]
Coordinates
chr5:110530407-110530947:+
Coord C1 exon
chr5:110530407-110530543
Coord A exon
chr5:110530544-110530818
Coord C2 exon
chr5:110530819-110530947
Length
275 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGTCCATCCTCATCCTGCAGACC
3' ss Score
11.01
Exon sequences
Seq C1 exon
GGAGCCACGACACGATGACATACTGCCTGAACCGTAAGTCTCGGATCTCCCGTGCAAGTTCGTGGCTACTGCACCTGTTGGGCCGGGTCGTGCCATTCATCACCGGGCCCGTGGTGATGAAATGGTCGGTCACACAG
Seq A exon
GTGAGGGCGTGGGAGCGTGGTTGGGGGACGAACCCGGGGGCGGAGTTAGGGGGTCTTGGTGACGTAGTCCTGGGGGCCAGGTGAGCCCTGCGGACAAGGAAGGGGTGGGGGGGAGGGAGGTCAGGGACCAGGTGGGCGGGATTAGAGGGTCCCGGTAACATTTGTAGGGGCAAGTTAGGGCCCTGGTGATGTAGCTCCGGAGGAGGGGCTAGGGATCCAGGTGACCCCTACTCCCGTGCATGGACCCGCCCCGGGTGTCCATCCTCATCCTGCAG
Seq C2 exon
ACCCTGGACGTGACGCAGCAGCTGGATGCGGGAGTGCGGTACCTGGACCTGCGGATCGCGCATGCGCCGGAGGGCTCTACACGGAACCTATGCTTCGTGCACATGATGTACACGAAGGCGCTGGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064247-Plcxd1:NM_207279:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.028 A=NA C2=0.021
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0038814=PI-PLC-X=FE(26.0=100)

							
A:
NA

							
C2:
PF0038814=PI-PLC-X=FE(24.3=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:288870-290647 
LOW PSI
HsaINT1027308
(PLCXD1)
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chrUn_GJ060118:2080-4669 
Chicken
(galGal4)
chr1:129432340-129434833 
ALTERNATIVE
GgaINT0116405
(PLCXD1)
Chicken
(galGal3)
chr1:134193804-134196297 
LOW PSI
GgaINT0116405
(Q5ZIV4_CHICK)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GGAGCCACGACACGATGACAT

				
R: 
CAGCGCCTTCGTGTACATCAT

				
Band lengths: 
260-535

			

		

	





	
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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