Special

MmuEX0040833 @ mm10

Exon Skipping

Gene
ENSMUSG00000015843 | Rxrg
Description
retinoid X receptor gamma [Source:MGI Symbol;Acc:MGI:98216]
Coordinates
chr1:167624928-167631122:+
Coord C1 exon
chr1:167624928-167625072
Coord A exon
chr1:167627292-167627471
Coord C2 exon
chr1:167630962-167631122
Length
180 bp
Sequences
Splice sites
3' ss Seq
GGTTGTTCTCTCGTAACCAGGGA
3' ss Score
7.15
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
CTAAATGTGGTCAACAGTGTCAGCAGCTCTGAGGACATCAAGCCCTTACCAGGTCTGCCTGGGATTGGAAATATGAACTACCCATCCACCAGCCCTGGGTCTCTGGTGAAACACATCTGTGCCATCTGTGGGGACAGATCCTCAG
Seq A exon
GGAAGCACTACGGTGTGTACAGCTGTGAAGGTTGCAAAGGCTTCTTCAAAAGGACCATCAGGAAAGATCTCATCTACACCTGTCGGGATAACAAAGATTGTCTCATCGACAAGCGCCAGCGCAACCGCTGCCAGTACTGTCGCTACCAGAAGTGCCTGGTCATGGGCATGAAGCGGGAAG
Seq C2 exon
CTGTGCAAGAAGAAAGGCAGAGGAGCCGAGAGCGAGCAGAGAGTGAGGCAGAATGTGCCAGTAGTAGCCACGAAGACATGCCCGTGGAGAGGATTCTAGAAGCCGAACTTGCTGTGGAACCAAAGACAGAATCCTACGGTGACATGAACGTGGAGAACTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015843_CASSETTE1
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact





	

	
Alternative protein isoforms (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.320 A=0.000 C2=0.519
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF118253=Nuc_recep-AF1=PD(30.6=69.4),PF0010513=zf-C4=PU(15.7=22.4)

							
A:
PF0010513=zf-C4=PD(82.9=95.1)

							
C2:
PF0010425=Hormone_recep=PU(5.2=18.5)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000015987





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000107011, ENSMUSP00000107015, ENSMUSP00000107017
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr1:165417041-165417220 
HIGH PSI
HsaEX6034617
(RXRG)
Human
(hg19)
chr1:165386278-165386457 
HIGH PSI
HsaEX6034617
(RXRG)
Rat
(rn6)
chr13:85854898-85855077 
HIGH PSI
RnoEX0077647
(Rxrg)
Cow
(bosTau6)
chr3:3617405-3617584 
HIGH PSI
BtaEX6013731
(RXRG)
Chicken
(galGal4)
chr8:5132703-5132881 
Chicken
(galGal3)
chr8:5353667-5353846 
HIGH PSI
GgaEX0004453
(F1NSP3_CHICK)
Zebrafish
(danRer10)
chr20:34007757-34007936 
HIGH PSI
DreEX0063855
(rxrgb)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TCAGCAGCTCTGAGGACATCA

				
R: 
TTGGTTCCACAGCAAGTTCGG

				
Band lengths: 
249-429

			

		

	





	
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
  • Ribosome-engaged transcriptomes of neuronal types
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types





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