Special

MmuINT0045037 @ mm9

Intron Retention

Gene
ENSMUSG00000066097 | Cyp2j11-ps
Description
cytochrome P450, family 2, subfamily j, polypeptide 11 [Source:MGI Symbol;Acc:MGI:2140224]
Coordinates
chr4:96011770-96015371:-
Coord C1 exon
chr4:96015043-96015371
Coord A exon
chr4:96011933-96015042
Coord C2 exon
chr4:96011770-96011932
Length
3110 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
3' ss Seq
ACTATTGAAATGTTTTTCAGTTT
3' ss Score
6.36
Exon sequences
Seq C1 exon
AACAAACCCTTCTGGAAAGATAGAAAGGCAGGCTTGGTTAGCCACGAACAAGCTGGAACTTAGCAGAGGGCTGTCAGTACTGTCAGGGGACTGGCACAGCTCAGACTCTCACCATGCTTGCTATTGCAACTTGCCTGGTGGCTAACATCTGCTCAGCAATCCATCTCTGGACTCTGCTTCTCACTCTTCTTACCTTGCTGCTCCTTGCTGACTACCTCAAAAACAGGCGCCCCAAGAACTATCCTCCAGGGCCCAGGCGCCTGCCATTTGTGGGCAACTTGTTCCAGTTTGATTTAGATGTGTCACGTCTGCATTTGGGGATCCAGCCG
Seq A exon
GTAAGAAAGGGAGAGGGGTTCTGGTTGTGCCATGACCTGATACTGACCTGTTGAAACAGGGGCAGAAGGATATGGTGACAGGCTGATACTGCCTGTCTGCTAACCTAGACAGTAAAGCTAGTTTCTAATCTGGGTCTTCATGTGAGAGATATGTTTAATGCCAAAAGGTTCATTTTATTATCTTTGCATAAACAAATTCGGTGTTATTTCATTATGTTCAGACAATACATTATGCATGATTTCAATTGTTTTAAGTATATTAAGGTTGATGGATGAGTTGATAGTTCATCTTGATAAATAAATTCTGTTGCTATAACAAATGTGTAAGCAAGTGCCCATATGCTTAGTATTTTAAGCACTCTAGCAGGAAACACACACACACACACACACACACACACACACACAAACCTGTGCTCTTTATCAAACTTTCCATAATATGATTTTCTCTTATAGATACTTATTTATTCTATAGTGTGTTGGCTGCTTCTCTACTGATTTTATCAACTAGAGAAAGGTTCACTGATGTCTCCAGTTCCATTAGGAGTTTGCCTGTTTTTCTCAGCTTTCTCTACTACCCTCCTCCCGTGTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGTATATGTCTGAGATCAATAGGTGGGGGGGTTGCAATGACCAACTTTCTTTGTAATACTGTTTTTTATCTGTAGTAATTTCCTATGCCCTGTGCCTTGACAGAGTATATTTGGGCCACATTTATAATTATCATTCATACTTACTGGTCCATTATATATTATTCCTATCCCTTAAAATTAGCTACAAAGAGTAGATCATTTTATGTACTTTATTGTTATATAAGGAATATTACTCCTTAATTTTATTACTGTCTTTTGTATTTCTGTTTCTTTCCTCTCCCATTTCCCTTTTTCTGTGGGTTTTTGAATGCAGAACACTTTTCAAGTAGTCATCTTCACTCTTTCCAGATATTTCTTTAATCCTCTAAACCACAGCTGCTTTGTGTTATGCAATAGGCACATTCAGCTGAAGAGACTTACTAATACCGCTCTCTTCAGGAATTAAAGTGACTACAAGCATAGAGTGTCCCTGTCTCTCCTGTAGGTACAGCTGTCTCAGGTGTAGTCTCCACACACACTGAGAACCATATCAGACTCAAATCTCGCAAGTGTCCTGTGCAACTGTAATTCAAAGACAGAAAAGTCTCCTGCCTTTGCTCCTTACTCCTGCTCCCATGGCCCTGTCTTTTTTCTAACCCTTCAAGTTCACAGCTTTCTTTCTGACGAAAAGCACTTCCTTTCTCCATTCCTTCAGAGGGGGCACAGCAGAACGAAATATCTTTTCCCACCTCAGAATGATTCTCCCCTCCATGCCCACACTGGCTTTTCCCTTTTTATGGGACACTAGGTTGATGAAATGCTTCCCTTAACCCTTTTACATAGTCCTGCTTTGTTCTGGCCTTTGTAGTTTGCCCATAAGTGATACAACATTTATTTTTCTCTCTGCTTTCAAGAGATTTCCTGTTTTTGATTAAAATTGATTGTGGTGATTTTGCATGATCAAGCTTGTGGCTTTATGTTGTTGAGTTTTTTGTAGCAGGGTTGTATTTTGCACCACTGGGGAGTTTCTACCATTCTTAAAGTATATTCTCATCTACACTGTCTCTTTCCTGGTTTGGTTGACAGAGGTACAGCTGTAAATCTCTGTGAGTGTGGTTGTGTTAAATCAGTAAGGTTTTCTCTTGACTGTCAACATGCATTTGTGTCTCTGACCCTTTGAACACAAAGCCCATTCAGTTTTCAGAGATGCTGTGGGTGGCTGGGACCAAACAAAATGCTTCTCCCAGTGCTTCTCTTATTCTTCCTCACAGGATCCTGTGAGGGAAGGGGTGAATTTTAACACTTTCATGGCTGGGAGCTTGAGACTTGAAAGATCACAACTGCCTAAACAGCCACAGTTATTGATCTATTAAAGTTATTATAAAGTTATTATAGTTATTGAGCCTATGTGCTTCCATCACTACAGATATTCAGAGATGTCTCCATTCTTAACCTACACCCTTTATTCCATTACCCTATCTATTTATACAGTGGTTCTGAACCTCTTGACCTCATTGTGGTCTTAGATCAGATCTCTTTCACAATAGATATTTACATTGCAATTGATAACACTAGAAAAATTATAGTTATAAAGTAACAACAAAACAATTTTATGGTTGGGAATCTCCATACCATGAGGAACTCTATTACATGGTCACATTTTTAGGAGGTTGATATCATACATTTTTCTAAAGCTTTCCATGCTTACTACAACAGACTTGTACAGAGACAGCTTGAACTCCCCAAGGATTGATAACCCTATTTCCCTGCTTTCACTAGACCAGGTTAGAGACCTTGCTTTCTTTAAGACATTTATAAACTCATGTAGTCTAGGGAAACATTGGTGATCACGGAGTTCTTAATGGAGAAAGCATGAATAAAGGTATAAGCAGAAACTTCACATTATAAACTGAATTAAAATTTGATAGAGTAGCGATGAGGGAGAAACTTATGACACAATGGTAACTTTTCCTCACACAGATGTGCAGACTCCCCTCCATGTTTGTCTCATTATTTATACATGTACATCTCATGTCTGGCTGATGCTGTGGAGAGGGCCATATTCCCCAGACAAACAGGCTGTTGATTTTGTAAGATGTCCATGAAAGCTGTACAAAACATTCACACACTTTTCTCAGCCTTTGTCAGGTCATGAGTACCTGAGCCTCTGCCTTTGCTGAGACTTTAGAATTCTTCAGGTAGAGACCCAGATAATTTGTTGACATTTACATCCTTAAACCTTCCTTTAGGAGTACATGATAGAATACTTCTAATTTCATACTCACCTATACCATTGACATTTTATATAGTATTTTCCATTTTAATTGAAATTGAGTTTAGTTCAGAGGAGGAAAACATTTTCAGAAACATTTCCACAGACTAAGAAGAATTCATCCATTCACATTAAAACAGAGACCCCTCAACACAAGTCCACCAAACACACATCTCTCTTAGACCCCTTAACACACTGAAACAGGTACATTTAAATATGACTATTGAAATGTTTTTCAG
Seq C2 exon
TTTGTGAAGAAGTATGGAAACGTAATTAGCGTGAATTTTGGTTACATTTCTTCAGTGATCATAAGTGGACTGCCCTTAATCAAAGAAGCTATCACTGGCATGGAACAAAACTTTTTGAAACGCCCCAGTTTAGCTGCAAGGCAACATGTATTTAAAAATAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066097-Cyp2j11-ps:NM_001004141:1
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=0.000 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0006717=p450=PU(6.1=38.9)

							
A:
NA

							
C2:
PF0006717=p450=FE(11.8=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000132180





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:59916101-59926536 
ALTERNATIVE
HsaINT0044311
(CYP2J2)
Human
(hg19)
chr1:60381773-60392208 
LOW PSI
HsaINT0044311
(CYP2J2)
Rat
(rn6)
chr5:115179336-115180810 
RnoINT0044394
(Cyp2j16)
Cow
(bosTau6)
chr3:86392490-86392573 
Chicken
(galGal4)
chr8:25617709-25624453 
GgaINT0039176
(CYP2J2)
Chicken
(galGal3)
chr8:27492697-27492717 
GgaINT0039176
(E1BVV4_CHICK)
Zebrafish
(danRer10)
No conservation detected
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
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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