Special

MmuINT0045057 @ mm9

Intron Retention

Gene
ENSMUSG00000028571 | Cyp2j13
Description
cytochrome P450, family 2, subfamily j, polypeptide 13 [Source:MGI Symbol;Acc:MGI:2385197]
Coordinates
chr4:95725675-95728766:-
Coord C1 exon
chr4:95728590-95728766
Coord A exon
chr4:95725817-95728589
Coord C2 exon
chr4:95725675-95725816
Length
2773 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
ACATACACTATCTTTTCCAGTAC
3' ss Score
6.24
Exon sequences
Seq C1 exon
CTCTACAACATCTTCCCATGGATAACAAAACATCTCCCAGGACAACACCAAACATTGTTGGCTACCTGGAGAAAACTGAAATCATATATTGCTGATATAATTGACAATCACCGCAAAGACTGGAACCCTGATGAGCCAAGAGACTTCATTGATGCTTTTCTCAATGAAATGGCAAAG
Seq A exon
GTGGGAAGATGTAACCTGTGTCTTTTTACAGAAAGGGTGATGTAAAGTAGCTACCTATTGATCCAGGAGCAGGCAAGCATAATGGCTGGATTTTACCATACCACACATTTATTCATTCTCTCATATTTCTATACAGTCCCTATCATCCTGTCTGCCAGGCAAGCTACTTCGAAAGACAATAGAAACTTCGTTGCCTTGTGTCTCTCATCTCCTAAGGGACATTGGTGTTTGTTCCTGAAGCTCATTTGTTCTAAATTCAATGCCAAGATTGCAACATCTCTTTGCTTTCTGATCCCTTTACATCTTATTTCTCTGGTACTATCCCTATTATAAGGATAACCTTTCCCCCTGAAATTAATCATATCTATAGGTAAACAGGCAACCTGCAAATTCCCTCTTTTTTCTTTTTCCCATATCTGAAGTAGACGCACACAAAATAAAAGCAGCAGTTAAATTTCAGGACTTTATTCTGTTATGGGTTGATCTAACTACCTTCCCCAATCTGAACCTCCAGACAAACTTCAGCTAAGTAAGTGGTAGAGTTTGACTTTTATATCTAGGTGAGCAACCTACCAATCTGTGGTCTCCATATCATCACTAGTCAATAACAGACAAAGCCAAGAAGACACTGAATGGAGATATTAGTTAAGTTTATATCCCTGTGACAACAACACATGGTAGCAAAATAAATAAATCAGAATGTACTCTGGCTGGGTTTCAGAAGATTTTCATCTTACGTGGCAAATGGCAAAGGAGCTAAGCTCCTGGGCAGAAGGGTGTGGGGCAGGCTTTCACGGCACAGTTGATCAGGAAGCAGAAACAAGAAGGCACCATGGGTTTGGTATAACTGTCAGTTACCCTCCTTCCTCATGGGCACCTTCATGCTGGTTCCTTCAGCAAGACATTATATTCCTATTCCCAAGAACTTTCCCAAAACTATCAGTGCAAGGAACCAAATATTTAACACGTGAGCCTGTGAAGGAACATCTTGAATTGTAGACATACTATAAAATGTAAACCCTAGACCCCAGTAGGATCCTGATGATATCACTGAATCTGTCATAGGAGTTACAACTCACTGGATAATGGGCAAAGTGGTAAACATTTATTTATTTGTTTATTTATTTATTTATTTATTTTTATACCTTCTTTGATATTTTATCTTCCTGGCATATCAGTAGAAGCCGTATTTTTTATTCTTTTTTATTAGATATTTTCTTTATATACATTTCAAACTTCAAATGCTATCCCTATACCCTCCCTCAGCCCTGCTCCCCTACCCACTCACTCCCGCTTCTTGGCGCTGGCAGTACCCTGTACTGGGGCATATAAAGTTTGCAATACCAAGGGACCACCTCTTCCCAGTGATGGCCGACTAGGCCATCTTCTGCTACATATGCAGTTAGAGACATGAGCTCTGGGGGTACTGGTTAGTTCATATTGTTGTTCCACCTATAGGGTTGCAGACCCCTTCAACTCCTTGGGTGTAGAAGCCATAGTTTATGCCAAGGGGAGAAGGCAAATCATTTACCACGTGAAGTGCGTGTATGAGACCATTAACATTGAGAGCACATTAATAAATGATGTTTCCAGAGGAAGTGATTAAAAGTAGGGACATTTTGTAAAGAACAATTGATGGAATCAGTAATGTTTTAACTTGGCAAGATGATGCAGATTGGAGAATAATTGAACAGAGAAATTTTATTTTAATCTTTCTCTTATAAAACCTGTTAAACATTGACTTTGAGCCTGTTGTATTCCCCAGAGATGATAATGGTGTGTTAAGGGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTATTCTTATCATATAAACTGACATATAGACATAGGCAAGGATACAAAGTGAGTGCCCTAGACCATACAGATACTTAGTGATATGACAGACACCGGAAGGCAAATAAGCTTTTTTATTACATTCTCTTCCCACTGTACAAAAACTTTTCCAAAAGTTCAGTAATAAGAATGGTTGCTTTGATTTTCATCTAGCCAACTGCCTCCAGGACCTCAGGATCAAAGGAGTCATCATTCTGAATGACTTAATCCAGCTCATTCCTCGGGGTGAGGACCAGTGTTCTGCGATGATCACCAACTCTCTAAATAAACAAACATACAGGTTTTCCAGTTTTGTTGAGTATAGCCTTTTGTAGAAGGATTTGATGGTGTTTTGGATTTCTTCAGGATTTGTTGCCATATCCAGGAATCCATCCCATAATTAGCCTCCAAACGATGACACCATTGCATACACTAGCAAGCGTTTGCTGAAAGGACCCTGATATAGCTGTGTCTTGTGAGACTAGGCCGGGGCCTAGCCAACACACAAGTGGATGCTCACAGTCAGCTATTGGATGGATCACAGGGCCCCCCAATGGAGGAGCTAGAGAAAGTATCCAAGGAGCTAAAGAGATCTGCAACCCTATAGGTGCAACAACATTATGAACTAACCAGTACCCCGGCGCTCTTGACTCTAACTGCATATGTATCAAAAGATGGCCTAGTCAGCCATCACTGGAAAGAGAGGCCCATTGGACACACAAACTTTATATGCCCCAGTACAGGGGAACGCCAGGGCCAAAAAGTGGGAATGGGTGGGTAGGGAAGTGGGGGGGAGGGTATGGGGGACTTTTGGGATAGCATTGGAAATGTAATTGAGAAAAATACATAATAAAAAAAAGATTAAAAAAAAGCCAGTGTGTGGAAAAAAAATAAATAAAAATAAACAAACATACACTATCTTTTCCAG
Seq C2 exon
TACCCAGGCAAGACTACTACAAGTTTCAATGAAGAAAACCTTATCTGCAGCACTCTGGACCTCTTCCTTGCTGGAACAGAGACAACATCCTCAACACTACGATGGGCTCTGCTCTACATGGCCCTATACCCAGAAGTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028571-Cyp2j13:NM_145548:5
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=PU(27.6=97.7)

							
A:
NA

							
C2:
PF0006717=p450=PD(0.5=2.1),PF0006717=p450=FE(36.7=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000030305





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000095587, ENSMUSP00000121962
  



Associated events






Conservation


Human
(hg38)
chr1:59907928-59909783 
LOW PSI
HsaINT0044315
(CYP2J2)
Human
(hg19)
chr1:60373600-60375455 
LOW PSI
HsaINT0044315
(CYP2J2)
Rat
(rn6)
chr5:119555167-119557266 
LOW PSI
RnoINT0044405
(Cyp2j4)
Cow
(bosTau6)
chr3:86620094-86634150 
ALTERNATIVE
BtaINT0002107
([1])
Chicken
(galGal4)
chr8:25613876-25614236 
GgaINT0039181
(CYP2J2)
Chicken
(galGal3)
chr8:27488864-27489224 
GgaINT0039181
(E1BVV4_CHICK)
Zebrafish
(danRer10)
chr20:25629292-25629382 
LOW PSI
DreINT0054228
(cyp2ad6)
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






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