Special

MmuINT0111926 @ mm9

Intron Retention

Gene
ENSMUSG00000001855 | Nup214
Description
nucleoporin 214 [Source:MGI Symbol;Acc:MGI:1095411]
Coordinates
chr2:31846784-31850496:+
Coord C1 exon
chr2:31846784-31846945
Coord A exon
chr2:31846946-31850042
Coord C2 exon
chr2:31850043-31850496
Length
3097 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
CTCCTTGGTTCTCGTTACAGGAA
3' ss Score
9.93
Exon sequences
Seq C1 exon
ATGAAGAAAAGACTCTTCCGCCTGCTCCGGTTCTCCTGTTACTTTCAACAGATGGTGTGCTTTGTCCATTTTATATGATCAACCAAAATCCTGGGGTTAGGTCCCTAATCAAGACCTTGGAACTGATCTCAACAGAAGGAGAGCGACAGCCTAAGTCCTCAG
Seq A exon
GTGTGTGCCTCTGACTCCTTTGGCAACCCATGAGCATCTCCGGGGATGGTGACTTAGATGTATGTAGTCACCTACACACAGTCAGTTTACTGCAGGAAGGTCTTGGCTGATCTTGTCCTGGAACCTATGTGCACGCACATCTTTACCTCACTTAGTCCCCAGGCCCATTCTCCAATCCTTACTGCACATGTCAGAGAAAGGAAAGTCAGCCATGTTGATCCAAGCTCTGTTGAATGACCTGTTTTAAAGAACTGTTTAATCGTGGGAGTTAGTCAAGCAGATGATTGTTCACAGACAGTTTAAAATAACTGAAAAATGTTTATTGACAGCAAGGAAGTAGAAAGATGTGTCAAGAAGGGCCACTGTGTGTCATGTGTTGCTTCTCTAAAAAAGAGTCCACATACAGAAACACTGGAAGGGGGCTGTTAAACTCTAGTGGCTCTTTCTGGCTAAGAGGAATATGGAGACTTTAGTGTTTGATTTCTATTTCATTGGCTTTTGATTTGTTTTCCCCCTCCTCTTTTAGAATATTGTCAGGTAATATCTGTATTGCAGAAAAGTTAGAAAATCCAAGAACGGGTTTCATAGACCATCAAGAAATAACATAGTCTGTATTTTGGGATGGAATCAACTGATCCTTTCTTCCGTGGATAAATGCCCACAGTGTCTCTAGTTCCACCTAAGCACTGCTGCCCGTTTTGGGGGAGGGGGGGTATGGCTGGTTATGCTTGGTGATGCTTTCATGCTGCTCTGTAAGGCAGAGTGACTCATGCGTCATGGATGCTGGCATACGTTGCCAGAGCTATACCAAATTTCGGTTATGGGGGGTGGGGAAGGGGGTTTGTACCTTATGTTCTCTCCTGAGACTTTCCATGAGCACCTACACCCAGCTTCAGTCTGTAGTGAGCAGGGCTGCCCATCGGGCCGACACTGGTGGCTGGTTGTTTCTGAGCACAATGTCCCACCATTGAGTGCCTGAGCACAGCCATGGGTGGCGACTGTTAGCTTTTTCTAGAGACCCTTCTCCTTCCTTTTCATCTAGTGCAGAGGTAACAGCTGTCCCCTGGTTAGTGAACATGGGAGATAGTCTGTCCTGGGACCTGCCCTGAATGGCTAAGGCAAAGTCAGCGCTTTGGAAGAAGACATTAGTGGTTCTCTCTGTTCCCACATAGCAGCTCCAAGACTGTGGTGTAGATTGGCCAGTAGTAGCAGGGTGAGGGTCTCCAAATACTCCATTCTAATCGTCCTTGGAAGAGTGGCTACAATTTCTTTAGGATGTGGCCTCAGCTTTTCCTTCTGGTCTAATCCTAATGGGTGTGGTAGTGGTTTATGTCTACATGTTTCTCTGAAGTCTTTGTCTCTTGCTAGTTCCATAGCTATTGTGTAGAAGAGGTAGCTGAGTAACCTAGAGAGTAGCCTTAGTTATTCTTCTAGAAGTGACAGGATGTCAGAAGGTGGTGATTTCACTCTTGTGTCCTCTCCAGGCTCTTGAAGATAAGATGTCCATCTCTCATGAACACCAACTGCCATCTTAGCCTAATAGCCAAGGCCAACTAATGTAAATTGGAAGTACACTTATTTTTTTAAAGTATTTATTTATGTAGTTGAATTGATATTAGGAAGTTGGGAAAGTAGAACAAATTCTAACCCTGCCTTTTTGGGGAGCTGTCTGCCCGTGTTTCTGCATGATCACCTTAAACTTAAATGTGGACATCATTGAAATGTTGATTTTATTTATTTATATGTTTTGATACTGGTCCTGGCTGGCCTGGAACTCATGGACATCAGTCTGTCTGCCTTCTGAGTGATGGGAGCAAAGTTGTGCAATGCTGTGCCCCACCTGAGATGTTGATTTTGAATTTAAGCTGTAAACTTTGTTTTATGTTCTTAGCTAATTTTCATGGTCTACAATAATTGACTTTTTTTTTTTAAATAGATAGGGTTTCTCTGTGTATCTCTTACTGTCCTGGAACTTACTTTGTAGACCAGGCTGGTCTCAAACTCACAGAAATCCGCCTGCTTCTGCCTCCCCAGTGCTAGGATTAAAGACGTGCACCACCACTGCCACTTGTTTCTGCTTTTTTGAGGCAGTCTCTCACAGTGTAGTTTTGGCTGGCCTGGAGCTCTCTGTAGACCAGGATGGCCTTAATTCAAAAGATTTGCCTGCCTCTGCTAGGAGTATTAGAACATAAGGCATATGCTATCATGCTTGGCTAAGTTTACATGTCTTTGATTCTAGAGATTGGATTTTTTTCCTCTGAATTAGGCTCTCTGCTTACATTTGTTAGCCTTGACTTTTAAGTATGACTGACTACTTTGGTTAAAACCTAGATCCTTTGCCTCAGTTATTTTATCTCATCTAAGTATTTTTTAGGAGGTCTTTGACTTCATCATTTTTGACATTTTTAAATAGATGAAGTGGTTGCACTCTCAGACTCAACTCTTCGAGAGAGCTGAATGAAAGGCTTTCATTTATAGGACCCTATCTTTAATTCATTTGGAGTTGCTTTTAAATAGTGTTTTGAGGCAGAGCCCTGAACGGTTATTTTCTGGTTAATGAAGTACTGCAGAATGAGGTTGAGGCCTCGCTCTTTAGAGTTTGCAGTATGCAGGCTTATTGCGCTTTCCATCCACCAAGTCCTATTAGCCTGGTGCCTTTCGTTCCACACGTTGTCTGTCTTGAGAGTTTCACGTGTGGTATCCTGTGGAACCCCTGCCACGGAAAGACCAACTCTACCCACTCTTTGTTTTCCTTCCTTCCTCCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTTTTTTTTTTGGTTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGATGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCATGCACCACCACCGCCCTGCTCCACTCTTTGTTTTCTTTACCGGCACCATTTGCAGCCCCTCTGTCCTCCCTCCCTTATCTTCTGTCATGTGGAGCCCCCGGGTTACAGTTTACATTTGTCCTTTTGTTTCTCCTTGGTTCTCGTTACAG
Seq C2 exon
GAAGTTTTCCTGGTACTCCATCTTCCCCTCAAGCTCCACAAAACCTGGACGCTCCAGCAACAGCCTCTTCGCCTCTTCCACCTGTGTCCGCTGCTCCCACCTCCACCTTCCCTATGCCCTCTGCTGCAGGAAGCCCTTCTGTGTTCTCCTTTGGCCCTTCATCCTTCAAGTCTTCTGCTTCTGTCACCGGGGAGCCCCCACTGTACCCCACTGGCTCCGACAGCTCCAGAGCAGCACCAGGCTCTGGCACCTCCACTTTCTCTTTTGCTCCTCCTTCCAAAGGCTCCCTGGCGTCGACCCCTGCAGTGGCTCCTGTGGCCACATCTGCTGCTCCCTTCACTTTTGGTTTTAAGCCCACCTTGGAAAGCACACCTATGTCCAGTACCCCAAACACAGGGATGAAGCCTTCGTTCCCTCCCTCGGCCTCTTCGGTGAAAGTCAACCTGAATGAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001855-Nup214:NM_172268:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.364 A=NA C2=0.783
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000066492





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000132063
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:131140711-131144279 
ALTERNATIVE
HsaINT0117076
(NUP214)
Human
(hg19)
chr9:134016098-134019666 
ALTERNATIVE
HsaINT0117076
(NUP214)
Rat
(rn6)
chr3:11002279-11005492 
LOW PSI
RnoINT0104371
(Nup214)
Cow
(bosTau6)
chr11:101361746-101365379 
LOW PSI
BtaINT0104834
(NUP214)
Chicken
(galGal4)
chr17:6100017-6101090 
LOW PSI
GgaINT0125167
(NUP214)
Chicken
(galGal3)
chr17:6723522-6724595 
LOW PSI
GgaINT0125167
(NUP214)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
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






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"