Special

MmuINT0123186 @ mm9

Intron Retention

Gene
ENSMUSG00000036833 | Pnpla7
Description
patatin-like phospholipase domain containing 7 [Source:MGI Symbol;Acc:MGI:2385325]
Coordinates
chr2:24852747-24854279:+
Coord C1 exon
chr2:24852747-24852870
Coord A exon
chr2:24852871-24854141
Coord C2 exon
chr2:24854142-24854279
Length
1271 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
CTCGTTCCTATCTCCCCCAGATC
3' ss Score
10.55
Exon sequences
Seq C1 exon
GAGAGCCAGGCCATCCCTCTCTTGTCAGTAGCAAGTGTGGCTGGACGAGCCAAGAGACAGATGTCATATGGTCCAGAGGAGCAGCTTGAGAGGTCCCTACGGCCCTCGGAGTTCAGCAGCTCAG
Seq A exon
GTACTGCTCAGTTCCGAGCCTTCTCACTCCAAGGTCCAGGTCTCCTCACTTGTTCCTAGGGCTTATTACGTGGCCCCAGGTTTTTCTGACCTGAGGCTTCCTCACAGGCTCCTCCCATGGTTACAATTCTTACCTACCCTTAGTTCCCTTTATATATGCCCAGATTTCTTGGTCTAGGATTTTCTTATCCGTTCCTAGCCCCCTGAAGCTTCCCTCAGTCAACCTCCCATACCCTGAGCCATGTTGCACGTGTCCAAGAATCTCACCTCTGTCTTTTGGTACTTCTCAGCAAGTGGTTTGTTCCACAGTATGCTGTTCAGGAGAGCAAGTTCTCAATTTTATCTTCTGATCCACATTGCACCACTCCTAGTTCTTAAGAGCAAGGGGGATGAATTGCCCAGGCATACTTAAGCAACATATATCGCCTACGCTAGATTATTATCACAAAGCTAGTTTGAAAGTAGATATACCTTCAGTGTCTTAATAGTCCATAATAGTCTATGGATTCCAGGTGACTAAAAACAGTTTATGAGGTGAAGTGAAGCAACCTACGGTATGAGGTAGACTGCAACTGTCCATTGGGTCCTGTCTAAGACAAGGCTTTGGGCTTGAGTGACCTTGAAACACATCCCTGGTTGATCTGGTTTTCCCCAGAAATGTACTTTAAAATAGATGTCATTTAAATCTATTTCCTGAGTAGTGCTTTTCTCTCTGAAATTTTGGTCAGCTTAAGGGATGGAACCTCGAGTCTTGTCCTCTTGAAGACAGTTGGTTGAGGGCAGCTCTCCAGTGTTGTCTTCACAGAGATTGGAGTGAGGAGGTCTGTAGATCTCTTTGGAAGCAGACAGTAGCACACAGTGTCCAATGTGGTAGGCTAGGCCGGGGTGCTATGAAGCTCAGATGGAACATTCAAACCAAGTTTTGTCACACATGTGCTAATGGTCATCTCTACAGAGGAAGGCCATGGAAAAGGGGGCAACTGGCAGGTTCCTCTGCTTCAGAACATATGGGTGATTGGAGGGGTAGTCAGTTCAGGAGTCCCATAGAGAACAATGGCCAAGAGGGAGGCAAGGTTGGAGGGCCAGCCTGAGGCTAACATTCTTTGGTTACTCCCCTGGCAAGTGCTAATAGTAAGATTGCTTGAAGTCCCTGTATGAGGGTAAGTTATCTGCAGGTTCACAGGGTACTTGGCCTTGGTCATATGCTGTTTGTGGGGACTCTGTTCTTTGGAACCAGACAGAGCTAGAGTAACTCGTTCCTATCTCCCCCAG
Seq C2 exon
ATCATGGGAGCAGCTGTGTGACAGTCTCTGGGCCTCTGCTGAAGAGGAGCTGCTCAGTGCCTCTGCCTTCTAACCATGGGGAGGTGGATGAGCTCAGACAGTCCCAGGGAAGTGGCTCTAACACTTCTGCCTTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036833-Pnpla7:NM_146251:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.424 A=NA C2=0.534
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000044078





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000044078f3576A, ENSMUSP00000117907, ENSMUSP00000132126
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:137515520-137519916 
ALTERNATIVE
HsaINT1027479
(PNPLA7)
Human
(hg19)
chr9:140409972-140414368 
HsaINT0128597
(PNPLA7)
Rat
(rn6)
chr14:37312399-37312849 
Cow
(bosTau6)
chr11:105622363-105622855 
BtaINT0114814
(PNPLA7)
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: 
GAGAGCCAGGCCATCCCTC

				
R: 
CTTGGAAGGCAGAAGTGTTAGAGC

				
Band lengths: 
262-1533

			

		

	





	
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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