Special

MmuINT0106855 @ mm9

Intron Retention

Gene
ENSMUSG00000006471 | Ndor1
Description
NADPH dependent diflavin oxidoreductase 1 [Source:MGI Symbol;Acc:MGI:1926047]
Coordinates
chr2:25107241-25110461:-
Coord C1 exon
chr2:25110384-25110461
Coord A exon
chr2:25107339-25110383
Coord C2 exon
chr2:25107241-25107338
Length
3045 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CAGTTTTCCTATGGCTACAGAAC
3' ss Score
4.81
Exon sequences
Seq C1 exon
GCGAATCTCATTAGGGAGCCCCTGGTGATATTTGTTTGTGCGACCACAGGCCAAGGAGACCCTCCTGACAACATGAAG
Seq A exon
GTAAGGTTGGCCTAATGTGTACCCTCATCCTGTTTTCATTGCTGTATAAGAGTCCCAGCGTGCACAGAAATAGCTTCCCTTCAACGCGTGTTGAGTATGAGAGGTGCCTTTGAGAGAGATTCTTTTTGTAGATCCGAGGAGAGAAATAGCTCTTAAAACCACACCTGGTGCTAGGGAAAGTGCCAGATGTTCAGAGAGTAAAGGGGGTCCTGAAATCGTACACAACTCTTGGGAAGGAAGGAGCACACCTTTAATTCTAGCTCTTGGGAGGCAGGAGCAGATGGAGCTGGCCAGGGCTACATAGAACCTGTCTCTAAAATAAATTAATAAAAGGAGGGGCAGATGGTGGTGAGAAGCAACCTGTGTAAAGGGCAGAAAGTTGAGGATTCCCCAGCCATGAACTGTGCTGACAGAAAAGGGGTAGGAAGAAAGGTTCATTCAAAAATCCTGGATAGCTACAGTGAAATGTCCTATTAAGATGAAAGCTATAGGGACTATGGAATTGACACAGTGATGCTGTCAGTGTAGCAAGACCACCACCTATCTGAACATGGCAAGAATAATGCTAGGCAATAAATATATCCCCGTAAGCAGGAGGTGCACACGTGCCTTGAGCTGGGTGGTGGCCCAAGGCTGAATAAATCAGGCATATTCCAGAGAGCCCAAAAGGTAGACTCAGCAGGGTGTGTAATCAGAGGGATATAAAAGATGAGGGCAGAATCACAGCACAAGAACCCAAAGTAAAGCCGGGGGAGGTTGTGCACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGTTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTATACAGAGAAACCCTGTCTCAAAAAACAAAACAAAACAAACAAACAATTCAAAGTAATTCCACCTGTGGATTGAGAGGACCAGTTATGGCAGATGCCAGGAGGTACCTAGAGGAGCTGCAGTTAGCTGTGCAGGACTGGGAAGGTCCTGGCACAAGCATCATTGTTGAAGCACCCAAAATAAAACTGAAAAAACAGAGTCCCCTATCCCTCAGGCCTGCCATCTAGCATGGGCAGAGTCAGAAAGGAGGAGTTCCCCTTCCCAAGGTCAGTGATAGGGTGGGAGGCTCAGTAGTGACTGCTAAGGAGAGCAGTCTATGTGGGGCAGACACTGTGATCTCCAGCACTAGAGAAGATGAAGTAGGATCAGGAGTTCAAGGCTGCCCTCACCTACATGTTAAGAAACTATATCAGCAAGGTATGGTGATATGCACCTGTAATCTCAGCCCTCCAGAGGCTAAACCTGAAGGACCAAGATTTTTGGTGTCAACCAAAATCATGAATCAAAATAAACAACTCGTGAGGCAGTGGTGGCACATTTGGAGTCTGAGGCAAGTGGATTTCTCTGAATTTGAGGCCAGCCTGGATTACAGAGGGAGTTCTAGGACAGCCAGGGCTACAGAGTGAAATCCTGTCTCAAAATTAAAAATAGGAAAAGGACAAGAAGGTGAGGGAATAGTGATCTCCCTCAGGTTTGAGGTATGCTGGTCTGTGGATACCCCACGTAGGAGCAGGAGTCAGTAGTTACTGTCTCAGTCACAACCGGAACAGAAGTCCCTTGAAGAGGCTACAGACCCAGCATCGCAAAACACATCCAGGAGTGTGGTCCCTCAGGTCTGCAGGGCAGGAAAGCCTTGGCCTTGGCCTCTTTGCCCTAATCCTCTTTAAAAACACATTGGAGTTATAGGGGAAAAAAAATCCAGTAACTGGGTCTTTGCTTATCTCTTTCTGGTGAAATCTACTGTGATAGGCATTTCCCAAAGCTTTTCCATCAGCTTTTCCAGGAGCTTCTTAAATACAGATAGGTCACAGAGAGAGAGAGAGACAGAGACAGAGACAAGGGGGGAGACAGAGAGACAGAATGGATGAATGAATATGTTTGCTGGAGTGAAGACTCTAGTGAAAGGCAAAGACAAACAGAACCTAGAATTCAATATGGATGCAGCTATTACTGGGCTAAGACCACCATCAAAGGAGGACAGACAGAAGTAGGGAAGCAGGAAAAAAATTGCAAAATATTGGAAGATAAAGCTGAGCAGTTCTCCCAAGTGTAACACAGAAATTGGACGGTGGAGGAAAACAGTCAACAGAACCTAAAGATCATGTGAGGAGTGACAGAGTAAGGTATGGGTAGGAAGGCAGTCAGTAAGGACAGTAAAGGTGTCACACAGCTGGGTGGCACTGGCACAGCCTTTAATCTCAACATGCCACAGGCAGGTGGAGCTCTTGAGTTCAAGGCCAGCCTAGTCTACAGAGAGTTCCAGGACAGCCAGGGCTACACAGAGAGACCTTGTCTACAAGGAAATAAACAATGTCACATAATGGAAGGACAGAACTGCTGCCTGAGACAGTGACTACATGCTTGCAAAGGGGCACCCAGAGAGGATGGGTTTAACTATTGGGGATAATAGACAACATGGCCTAATGGCTGACAGGCCAGAGGGCAACAAACTGGAAAGGTCATTATGAACCCAGAGTTCGAGGGCATGAGTCAGTGACTCAACACCTTCAGAGAATCATAGCACAGCCCATCGCCCTTTTTTACCCAGAAAACTTGAGTGAGAACTTATGGCTGGCCTCTCCCTTCTTATGGCAGTAGACAGGCTGGTCTACCACTACAGTAATAGAGAAGCAGCTGGAGGGTGGTAAGCGAATTCACCCCTAGACCAGATTAGGAAGAATACTCCACTGAGTGTCCTGCAGGGGGGCAGCAGGTAATTAATTGGGGCACTGAGCTACAGGTTACCATATATGAGAAATACTTACACTTACACAGTTAGGATAAGTTTTCTTTGTGTGCAGGTTTCTGGTCTATAATTTTGTTCCATGTGAAGGGGAGATGTCCAGATTGGCCAGTGTACAGTTCTGGGCTCTAATGGTCTTCCTTCCACACCATCCTCTCCCTGCTGGGACCTCAGACAGAAAACTGGCCTGAGCTGAGGTCCTAACAGTTTTCCTATGGCTACAG
Seq C2 exon
AACTTCTGGAGGTTCATATTCCGGAAGAGCCTGCCGTCCAGCTCCCTCTGTCAAATGGATTTTGCTGTCCTAGGCCTCGGGGATTCCTCATATGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006471-Ndor1:NM_001082476:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.075 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0025820=Flavodoxin_1=PU(27.2=57.1)

							
A:
NA

							
C2:
PF0025820=Flavodoxin_1=FE(31.1=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000109989





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000006640, ENSMUSP00000097903, ENSMUSP00000123247, ENSMUSP00000123958, ENSMUSP00000124985, ENSMUSP00000125018, ENSMUSP00000125259
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr9:137206310-137212501 
ALTERNATIVE
HsaINT0111730
(NDOR1)
Human
(hg19)
chr9:140100762-140106953 
ALTERNATIVE
HsaINT0111730
(NDOR1)
Rat
(rn6)
chr3:2471365-2474368 
ALTERNATIVE
RnoINT0099542
(Ndor1)
Cow
(bosTau6)
chr11:105888363-105891790 
ALTERNATIVE
BtaINT0100314
(NDOR1)
Chicken
(galGal4)
chr17:951813-952305 
ALTERNATIVE
GgaINT0126428
(NDOR1)
Chicken
(galGal3)
chr17:1343515-1344007 
LOW PSI
GgaINT0126428
(NDOR1)
Zebrafish
(danRer10)
chr5:31891548-31891621 
ALTERNATIVE
DreINT0103034
(ndor1)
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"