Special

MmuINT0124054 @ mm9

Intron Retention

Gene
ENSMUSG00000053293 | Pom121
Description
nuclear pore membrane protein 121 [Source:MGI Symbol;Acc:MGI:2137624]
Coordinates
chr5:135859709-135860036:-
Coord C1 exon
chr5:135859963-135860036
Coord A exon
chr5:135859834-135859962
Coord C2 exon
chr5:135859709-135859833
Length
129 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGT
5' ss Score
8.1
3' ss Seq
GCCTGTGTTTCTGTCTGTAGTTA
3' ss Score
8.65
Exon sequences
Seq C1 exon
AGAGGAGGAGCCATGTCAGCAGTCCAGTTCTTCACCTCCCTTGGTGACAGACAAGGAGTCCCCAGGAGAAAAGG
Seq A exon
GTAGGTAGAGAAGCCATGGGCCCGAGAGGAGCATCTCCAGTGAAGTTCACCGTGTTACTCTGGGTGGGGCAGGGAAGATCGTCTTGTCCTTGAGTAGGGAGGTCAGCAAGCCTGTGTTTCTGTCTGTAG
Seq C2 exon
TTACAGATACAACCACTGGGAAGCAGCAGAGCTCATGGACTTCCCCACCCACACCTGGCAGCTCCGGGCAACGCAAACGCAAGATCCAGCTGCTGCCCTCCCGGCGAGGGGACCAGCTCACCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053293-Pom121:NM_148932:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=1.000 A=NA C2=1.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF152291=POM121=FE(10.5=100)

							
A:
NA

							
C2:
PF152291=POM121=FE(17.2=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000106801





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000064466
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr7:72708316-72708754 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr25:34345293-34345932 
LOW PSI
BtaINT0003821
([1])
Chicken
(galGal4)
chr19:304819-305525 
ALTERNATIVE
GgaINT0132145
([2])
Chicken
(galGal3)
chr19:305751-305765 
GgaINT0132145
([3])
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AGAGGAGGAGCCATGTCAGC

				
R: 
AAGGTGAGCTGGTCCCCTC

				
Band lengths: 
198-327

			

		

	





	
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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