Special

MmuINT0124056 @ mm9

Intron Retention

Gene
ENSMUSG00000053293 | Pom121
Description
nuclear pore membrane protein 121 [Source:MGI Symbol;Acc:MGI:2137624]
Coordinates
chr5:135858941-135859599:-
Coord C1 exon
chr5:135859497-135859599
Coord A exon
chr5:135859115-135859496
Coord C2 exon
chr5:135858941-135859114
Length
382 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGG
5' ss Score
7.2
3' ss Seq
GAGGCTTGTCTCTCCTCCAGATG
3' ss Score
8.97
Exon sequences
Seq C1 exon
CCTCCACCCCCAGAGCTTGGCTATTCCATCACTGCTGAAGACCTGGACATGGAGAGGAAAGCCTCACTGCAATGGTTTAACAAGGTCTTGGAGGACAAGCCAG
Seq A exon
GTCAGGCTGGGCGCAGTGTGCTCCGCAGTGTCTCTGTATTCCTTTTAGCTTTCCTTGGAAGAGCAGTTGTAGAATACTTGATTTTTCCATTCATTATCCAAGGCTGTCTTCAGGGTCATAATCCTCCTCCTGCTTCAGCCTCCAAAGTGCAGGGTTGCAAATGTGCACCATTACAACCAGCTCTTAGATGTTTGTCCCCCCTGATTCCACCAGGGCTCTTATTAACAGGAACTGTCACTAATACTTTTCCCATGGGACATGGAAGTTTTGTTGTTTGTGACAATAATGTTACTGTGTCCCGAGTGCTGGAGCGCAGGCCGGGAGCCAGCAGTGAGGTTAGGAAGGAAGGAGCTCCCATGTAAGAGGCTTGTCTCTCCTCCAG
Seq C2 exon
ATGATGCTTCCGCCTCAGCCACTGATGGCCCCCCTTCCACCAGCCCTCCCTTCACATTCACCCTGCCCGCTGTGGGGCCTGCTGCCTCGCCAGCCTCCCTCCCGGCTCCCAGCTCTAACCCACTGTTGGAGAGCTTGAAGAAGATGCAGGAGTCTCCAGCCCCATCATCCTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053293-Pom121:NM_148932:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.993 A=NA C2=1.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF152291=POM121=PD(12.7=88.2)

							
A:
NA

							
C2:
NO

						

					

				








    
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)
chr7:72709425-72709724 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr25:34344723-34344950 
ALTERNATIVE
BtaINT0003823
([1])
Chicken
(galGal4)
chr19:303857-304192 
LOW PSI
GgaINT0132147
([2])
Chicken
(galGal3)
chr19:304792-305127 
LOW PSI
GgaINT0132147
([3])
Zebrafish
(danRer10)
chr10:35236772-35236859 
LOW PSI
DreINT0117549
(pom121)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ACCCCCAGAGCTTGGCTATTC

				
R: 
GAGGATGATGGGGCTGGAGAC

				
Band lengths: 
270-652

			

		

	





	
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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