Special

MmuINT0044978 @ mm9

Intron Retention

Gene
ENSMUSG00000061740 | Cyp2d22
Description
cytochrome P450, family 2, subfamily d, polypeptide 22 [Source:MGI Symbol;Acc:MGI:1929474]
Coordinates
chr15:82202820-82203356:-
Coord C1 exon
chr15:82203215-82203356
Coord A exon
chr15:82203008-82203214
Coord C2 exon
chr15:82202820-82203007
Length
207 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGC
5' ss Score
4.09
3' ss Seq
AGGTGATGCTGTCCTTCCAGGCC
3' ss Score
6.58
Exon sequences
Seq C1 exon
GCCAAGGGGAATCCTGAGAGCAGCTTCAATGATGAGAACCTGCGCACGGTAGTGGGTGACCTGTTCTCTGCAGGGATGGTGACCACCTCAACCACACTGTCCTGGGCCCTGATGCTCATGATCCTGCATCCAGATGTGCAGC
Seq A exon
GTGAGCCTGGCCGGGACTGGGATGAGAGGAGGAGGAGGGTAGAGGCACAGTCCTTAAACTTACTTAGGACATTTGTGGCTCCCAGCACTCCAGCAAGGACAATGGCTATCATTCTCCCATGAACCCAGCCCTTACCATAGAGGTAGTGGAGGGACAAGGGGCACCACCCCCTGAGGCTCCTTAACTGAGGTGATGCTGTCCTTCCAG
Seq C2 exon
GCCGAGTACAACAGGAAATCGATGAAGTCATAGGGCAGGTGCAGTGTCCAGAGATGGCAGACCAGGCTCGCATGCCCTACACCAATGCTGTCATTCATGAGGTGCAGCGCTTTGCAGACATTCTCCCTCTTGGTGTACCTCACAAGACTTCTCGTGACATTGAACTACAGGGCTTCCTTATCCCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061740-Cyp2d22:NM_001163472:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.083 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0006717=p450=FE(10.2=100)

							
A:
NA

							
C2:
PF0006717=p450=FE(13.4=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)
chr22:42127635-42127841 
ALTERNATIVE
HsaINT1010486
(CYP2D6)
Human
(hg19)
chr22:42523637-42523843 
HsaINT0044282
(CYP2D6)
Rat
(rn6)
chr7:123600375-123600595 
Cow
(bosTau6)
chr5:113610278-113610491 
Chicken
(galGal4)
chr1:49270600-49271205 
LOW PSI
GgaINT0117952
(CYP2D6)
Chicken
(galGal3)
chr1:51297616-51298221 
ALTERNATIVE
GgaINT0117952
(F1NJG4_CHICK)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TTCAATGATGAGAACCTGCGCA

				
R: 
AGCCCTGTAGTTCAATGTCACG

				
Band lengths: 
292-499

			

		

	





	
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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