Special

MmuINT0110519 @ mm9

Intron Retention

Gene
ENSMUSG00000002393 | Nr2f6
Description
nuclear receptor subfamily 2, group F, member 6 [Source:MGI Symbol;Acc:MGI:1352453]
Coordinates
chr8:73902288-73905851:-
Coord C1 exon
chr8:73904890-73905851
Coord A exon
chr8:73902383-73904889
Coord C2 exon
chr8:73902288-73902382
Length
2507 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
ACCCTGGCCTGTGTCTCCAGGTC
3' ss Score
10.16
Exon sequences
Seq C1 exon
GGCGCCGATGGAACGCGGGTGTCAGGCCGGCCGCAGCGCGGGGCCGGCGGCGAGCGCCAGGGCGAGGCCGAGGCTCGGGCCCAGGCGCAGGCCGAGGCCGGCCGCGCGAGCGCTCGGCGGGGAGACGATCCAGGGAAGGCCGCGGGTCGCACTCTCCACTCAGCTCTATCGCCTGGACCTCTGCGATTACGGCCGGGCGCGCGCGGCGTGCGGGACTCCGGGTCTCCGACGCGCGCTCCCGCCGCCCCTCCCCCCTCGCCGCGTAACTTGCGGCCAAAGTTTCCCCCCGGGCTCGGGGGCGCCCGCGCGCGCTCGGATGGTGAGCCACTAAGTTGGCCTGGGCGGCGGGGCCGGGCCATGGCCCCCGCGACGCTACCGGGTCCCCAGGACTCCGGACCACGGGACCTGGGCGCCCCAGACTCGCGCCTCTAGCGCGCCCCCGTCGACCGCGGGCACGCGTGGGAAAGTTGGCCTGGAACCGGCCCGACCAGTTCCTGCCTGGCGCGCGGACCGGCCGCAGGAAGTTGCCGCAAAACTTTTTTCAGGGGGGTGTGCGACCGGAGCCCCCCGAGAGCGCGGGCTGCATGCGCCCGGGGTAGCCGGGTCCCTCTCGGGTCGCCAGGCGTGCCCAGAGGGGACGGACTCGTCCCGGGGCGTACCGGCCCCGCTGTCTCCGGGGCTATGGCCATGGTGACCGGTGGCTGGGGCGACCCCGGAGGCGACACGAACGGCGTGGACAAGGCTGGTGGGAGCTACCCACGCGCGACCGAGGACGATTCGGCGTCACCTCCCGGGGCGACCAGCGACGCGGAGCCGGGCGACGAGGAGCGTCCGGGGTTGCAGGTGGACTGCGTGGTGTGCGGGGACAAGTCCAGTGGAAAGCATTACGGCGTGTTCACCTGCGAGGGCTGCAAGAGTTTCTTCAAGCGCAGCATCCGCCGCAATCTCAGCTACACCTGCCG
Seq A exon
GTGAGCCCCACGCGCGGCCACCGAGCTGGCCCGGACCTGCTCGGTCACCTTGGGCCTGGCGCTGACCTTCCCCACACCCGCATTCCTGCCCCAGACCACGGGTTCGGCCCTAGTGGAGTTGGTGATACATGCGTGCAGGTGCTCCCCCTCTCCTCCCCCGCGCAGGTGGTCTTTGCTCTTGTCCTCCTGCTCTGGAGAGAGCTGGTTCTGCTAGACAGGGAGGGCTCGGGAGTGCTGTCAGGAGTGAGGACCCTCTTTCCAGCCCCCAGTGCCCCCTTTCTCGTGGGGGCCCGTCACGCGTGGTGCCTCGCGGGAATCAGAGGTGCAAGTCGCACCGCGGGGCTGGCGGCGTCCAGGGGCCATTGTCTGCGGCCGCGCGGATCGATCCGGCGCGCCCTTGGGTCAAATATCACTTCCAAAGTCGCCCTTGCATGGGTAGCTGGAGAGACTCCCGGGTGGGTGTCTCGGAATGGCTGCCTTCACGGGAATCGGGGGACTGCATGCACGAGGGTCTGTGCCTGTCCATCAGAGGGGTACCCCTTAGGTTCTGGGTCACCGGAAGCCGCCGCTGGAGGGCCAGCAAGGCCACCGGAATTGACCGCACCCCCACTCCCGGGTTGGTTCAGCTTTGGGGCTCCGGGATGAGACCTTAAACTTCGGGACGACTCTTAAGAGTGAAGTACCCGTGGGAGATGCCGTCTGGTGGGGACCCCTCTACAGGGCCATGCAGGGCGTGGTCTTGCTTACTGGCTGCCTTAGGGGACAGAAAGCCCCTCGAAAAAGAGGTTGGCTGTCCAGGCCAGGGGTTGTAGAGCACTTTCTATCCATGCATGCAGCAGACTTTGCATTCCCCAGGATCGTGCAGGGCCTCAGAACAGGGCAGGCAGCCCCGTTTCCCAGGTGCCTGGAGCCCCAGAGAAGTTGTAGAGTTATGGGAAGGGTCCTGGCCCAGTGGACTTAAGCAGGTAGAGCTGTGGGGGCTGGATGTGGAGATGAGTTCCTTCCCAGAGGCAGATGCTACTGACAGGTCAGGTGGGGGCCACCCCCATGTTAGAGTTTGGACTTGTTGGGGACCTGCCTTGCTCCCCTCCTCCACCTGTAACTGGGCCACCAGACTTTGGCCTCATTCTTGTGTCTGGAATGAGTTGCTGGGTCTGGCTGGGTCTTTGGGGAGAGTGAAGGGGACTGGGGCGGGCTCTCTAGGATCCTCAGGACCTATGGTGTGGGGCCTCGTGTGGTTGGTCTCCCTCTCTGAACCTAAGTGGACTAGCAGCTGTCTGGAGCTGGGAGGGCTTCAGGAAGTGGCCTCAAAGCCCTGGGGTAGGGCAGGCAGAGGAGGACCCTCCCCCCATGATGCTTAGTGGGCTGTGTTGTCAGGTGAGCCCATCCGGGCACAGCAGAGGCATGTGGGCATGAAGTGCTGGGTTGAGGGCAGCAGGGAGCCATGGACAGTGTGTGAGCATGGTATGGTCACATTGGATTGGGAAGCTGGTCACTGTTACAGCCCCAGCTACTCAGAACACAGCCTGGACAGCATAGCAAGGGGGCAGTGTCCACCCCATCCCCAAACAGAGATAGAGATAGCCATTGTGATGAGCATAGCACAACAGGCAAAGCATATATCACTTTAGGTGAGATAGCCAGAAGAACTTACAGGTTTATGGGTTTTAATCTGTCCCAACCACACAGTGGAGACGTCAAAGCCTTCCCTGAGCAGAGCCCACCCGCTTAGGGCCTGGCCAGTTCCGCCTGGCCGCCCTGATCCCCCATCACTGCTTGGCTGCTGGCTTTGTTCTGGCTTTGCCTGAGTTCTCTCTGTCCCAGCTGGGCCCCTTCCTGGGGGCCTCTAAAAGTCAATAGGGTCTGGGCTCTCCTAACTCTGCCCAGAGCACCCTGGCTGGGACAGGAGCTGTCCTGGAGCCCACAGAACCTCTCAGCTCAATGGCTGCTGCATGGGGCAGCAGCCAGAGGGTGATATAGGAACAGGCTGGGAGGAGAGGCCAGCGCCTAGAGCTTGATTTCTGCCTCTTATTTCTACTCCAGGTCTGGAGGCTTTTTGGTGCCCAAATTGGGTACTCCTCGTGGGCTGTCCACAGAAAGAGTCTTGGGCTTATGGAGACATGGGTATGGGGCTGGTGTTCTCAGAGGAGAAAAGTTCTGTTCGTTGCTTCTCACCATAGGCTGTGAGGTTGAGCCAGCGCAGTACTGTGACTCCATGCATAGCTGGTACTTGGCCTGGTGGTGACCAAGTAAGATGAACAGGATTCGGTTTCCATCCTTTGCGTTTCAAGTCTGTTCCATTGTGTCCTCTACCAGGAAATGCTTTTCCATCTGCCCCCTTGGGGAACTTCTGTGCATCCCATTCTGATCAGATTGCTCCTTCCAAGCTAGGGAACTGAGTCCTCACCATGTACTCTTGGGGCTCCCATCACAGGTCAGGGATCCCCCACTGGTATTTCCCAGGGGTTTGCAGGCACATCAGTGGGAACCCTGGCCTGTGTCTCCAG
Seq C2 exon
GTCCAACCGTGACTGTCAGATTGATCAGCACCACCGGAACCAGTGTCAGTACTGTCGGCTCAAGAAGTGCTTCCGGGTGGGCATGCGCAAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002393-Nr2f6:NM_010150:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion (1st CDS intron)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.463 A=NA C2=0.043
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0010513=zf-C4=PU(55.7=41.5)

							
A:
NA

							
C2:
PF0010513=zf-C4=PD(42.9=90.9)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000002466





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000002466f6057A
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr19:17240766-17244942 
LOW PSI
HsaINT0115623
(NR2F6)
Human
(hg19)
chr19:17351575-17355751 
LOW PSI
HsaINT0115623
(NR2F6)
Rat
(rn6)
chr16:19774425-19776921 
ALTERNATIVE
RnoINT0102977
(Nr2f6)
Cow
(bosTau6)
chr7:5782077-5785642 
LOW PSI
BtaINT0103587
(NR2F6)
Chicken
(galGal4)
chr27:4345082-4345379 
GgaINT0027525
(NR2E3)
Chicken
(galGal3)
chr10:770973-771415 
GgaINT0027525
(F1P0M4_CHICK)
Zebrafish
(danRer10)
chr11:6120223-6126744 
LOW PSI
DreINT0106130
(nr2f6b)
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






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