Special

MmuINT0044974 @ mm9

Intron Retention

Gene
ENSMUSG00000061740 | Cyp2d22
Description
cytochrome P450, family 2, subfamily d, polypeptide 22 [Source:MGI Symbol;Acc:MGI:1929474]
Coordinates
chr15:82204334-82204899:-
Coord C1 exon
chr15:82204728-82204899
Coord A exon
chr15:82204487-82204727
Coord C2 exon
chr15:82204334-82204486
Length
241 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAAT
5' ss Score
1.13
3' ss Seq
GCCTAAGTGTGGCCCTCCAGGTA
3' ss Score
6.31
Exon sequences
Seq C1 exon
CTGCGGGGTCGCTATGGGGACCTGTTCAGCCTACAGCTGGCCTCTGAGTCAGTGGTTGTACTAAATGGGCTGACGGCCCTGCGAGAGGCACTGGTGAAACACAGCGAGGACACTGCTGACCGGCCACCGCTGCATTTCAATGACCTGCTGGGCTTTGGACCACGCTCTCAAG
Seq A exon
GCAAATGCAGACAGTGGCGGGAGTGGTGGGCAAATGGGCACTAGAGAGAGTTTGGGGATTGGAGGCACTCTGGGACCTAATTGAGGTGGGGGGGGGGGGACAGGAACAGAGAAAAGACAGCAAAGGCAGGTGGCTAAAGGGTAGACAGAGGATCTTACAGTAGTGATGGGCTGTAGTCATGGTAAAGTAGCAAAGGAGCAGAAAAGAGGGCGAGGTCTCAGGCCTAAGTGTGGCCCTCCAG
Seq C2 exon
GTATAGTCCTAGCACGGTATGGGCCTGCCTGGCGTCAGCAGCGGCGCTTCTCTGTGTCTACCATGCACCACTTTGGCCTGGGCAAGAAGTCACTGGAGCAGTGGGTGACTGAGGAGGCCAGATGCCTCTGTGCCGCCTTCGCTGACCATACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061740-Cyp2d22:NM_001163472:3
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(12.4=100)

							
A:
NA

							
C2:
PF0006717=p450=FE(11.1=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000023083





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000131100
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr22:42129186-42129737 
ALTERNATIVE
HsaINT0044278
(CYP2D6)
Human
(hg19)
chr22:42525188-42525739 
ALTERNATIVE
HsaINT0044278
(CYP2D6)
Rat
(rn6)
chr7:123601872-123602096 
ALTERNATIVE
RnoINT0044350
(Cyp2d4)
Cow
(bosTau6)
chr5:113611790-113612322 
ALTERNATIVE
BtaINT0005682
([1])
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr20:25688674-25688747 
LOW PSI
DreINT0054263
(cyp2p10)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TACAGCTGGCCTCTGAGTCAG

				
R: 
CAGTATGGTCAGCGAAGGCG

				
Band lengths: 
294-535

			

		

	





	
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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