Special

MmuINT0045127 @ mm9

Intron Retention

Gene
ENSMUSG00000029541 | Cyp2w1
Description
cytochrome P450, family 2, subfamily w, polypeptide 1 [Source:MGI Symbol;Acc:MGI:3616076]
Coordinates
chr5:139829794-139830343:+
Coord C1 exon
chr5:139829794-139829956
Coord A exon
chr5:139829957-139830193
Coord C2 exon
chr5:139830194-139830343
Length
237 bp
Sequences
Splice sites
5' ss Seq
GGGGTAGGT
5' ss Score
6.59
3' ss Seq
GGCTCATGTCTACCTGACAGGCA
3' ss Score
5.22
Exon sequences
Seq C1 exon
CTCTCAGAACGCTACGGGCCCATGTTCACAATCCATCTGGGATCTCAGAAGACCGTGGTGCTGTCGGGCTATGAGGTGGTGAGGGAGGCCTTGGTTGGAACCGGGCATGAGCTAGCCGACCGGCCCCCAATTCCCATCTTCCAGCACATCCAGCGAGGTGGGG
Seq A exon
GTAGGTGGGCATTGGGGTTCCTTGCCAGATGGGGGGGAGACTAGGCCTCTTGGATTGGTACTAGGGAGAGACAGGATCAGCCTATTGCAAGACAGGAGAAGTATGACCCAGGGTAACCTCCGAATGGGAGGGGCATGGAGTTGAGCCTGCCCCCCCACCCCGAGTGGGCCCCCTGTTCCCTGCATGCATCATCAGATGGGGCGTGGCTGGCACTCATGGCTCATGTCTACCTGACAG
Seq C2 exon
GCATTTTCTTTTCTTCTGGAGCTCGCTGGAGGGCGGGTCGCCAATTCACGGTGCGCACACTGCAGAGCCTGGGTGTGCAACAGCCATCCATGGTGGGCAAGGTGCTGCAGGAGCTGGCCTGTCTTAAAGGACAGCTGGATAGCTATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029541-Cyp2w1:NM_001160265:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0006717=p450=FE(11.9=100)

							
A:
NA

							
C2:
PF0006717=p450=FE(11.0=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000031521





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr7:984575-984949 
LOW PSI
HsaINT0044336
(CYP2W1)
Human
(hg19)
chr7:1024211-1024585 
LOW PSI
HsaINT0044336
(CYP2W1)
Rat
(rn6)
chr12:17386310-17386574 
RnoINT0044436
(Cyp2w1)
Cow
(bosTau6)
chr25:42309634-42309898 
ALTERNATIVE
BtaINT0046222
(CYP2W1)
Chicken
(galGal4)
chr14:2254229-2255445 
LOW PSI
GgaINT0015022
([1])
Chicken
(galGal3)
chr14:2260842-2262058 
LOW PSI
GgaINT0015022
(E1C495_CHICK)
Zebrafish
(danRer10)
chr15:92216-92304 
LOW PSI
DreINT0148507
(si:zfos-411a11.2)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CTCTCAGAACGCTACGGGCC

				
R: 
CCTTTAAGACAGGCCAGCTCC

				
Band lengths: 
293-530

			

		

	





	
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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