Special

MmuINT0045397 @ mm9

Intron Retention

Gene
ENSMUSG00000048440 | Cyp4f16
Description
cytochrome P450, family 4, subfamily f, polypeptide 16 [Source:MGI Symbol;Acc:MGI:1917351]
Coordinates
chr17:32673943-32677360:+
Coord C1 exon
chr17:32673943-32674141
Coord A exon
chr17:32674142-32677215
Coord C2 exon
chr17:32677216-32677360
Length
3074 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TCAACCTTCTCCATCTCCAGATC
3' ss Score
10.61
Exon sequences
Seq C1 exon
GATGCTGCGGCTAAGTGTGTCTGGGCTGGACCTGGGCTCTGTGGTGACCTCGTCATGGCATCTTCTGCTGCTTGGAGTGGCTTCCTGGATTTTGGCCAGAATCCTTGCCTGGACTTACTCATTCTATGAGAACTGCTCCCGCCTCAGTTGTTTCCCTCAGCCTCCTAAAAAAAACTGGTTTTCAGGTCACTTGGGCATG
Seq A exon
GTGAGTATGGCGGCAGATAGGCTGGGGGTACCGGGGTGTATGTGTTCCCTAGGCATCAGGAAAGGTCTGGAGCCTGTAGCAGGGAGAAGCAAAGAAAGTTATTTGGGCCCCTATTCTCATCACAACCCCACATTCATTTATCTTTCTTTCCAAGTTGTGCTCATCAGCCTTTCTCTCTTACCTGGCACCAGCCTACTGTGGGCCATACTCTCAGCAGGACTGAGGATTCCTCAAGTTCCTGGATATGTGTCATAGTCAGTGGATCCCATGGCGAATAGCACAGAGTAGTGGCATCCCTGGTATATTCTGTTTCACTGCTGGATTTGAGATCTTCCTTCAGTATGTCCAAGGTCTTGCCTCCTGCCTGGCTCATCTCTCTTGGTTTCAGATCAGTGACTGTATCTCTCTGGGTTGCTATTTGCCCTGTAGGATTCAGCTGCGATTTCTTACCTCCACCTACTGTTTGGGTGCAGAAGAGAGATTGTAGTTTTTTTCCCTTCCACTTCTTGGCCACTGTCCTTCCTCATTTTGCCCTCTGTCCTGAAGATGCATTAGTGGGCTCCATTATGCAATGTAGGTCAAGGATGAACACTTTTTAACATTGGTAGTGATTATCTGAAGTGCTTAGGGTTTGTGCATGCTAAGCAATGACTTTATTCCAAAGGCACATCACAGCATGACCATTTTCTCTCTGGTCTCATCATAATGACTACACTTCCTACTCAGTACCCTTCCCTGGTCACCAGGTCCCCTTGCTCCATGCTGCTCCATGTTGCAGAACCACATCTTGGGATTAGATCACTCATAATAGAGATATCATCACCAATGCCATACATTCAAGTACTGCTTCTCTCAACAGAATCCTCTTTCCTACCAACATTCTCATGTAACCATTGTTATCCAATGTCTTCTCAGCATCACCATCCTTTATGCATACTAACCTATCAGCTTCCTTACAGTTCCCTTTCATCTCCCCATGAGTTCAAATTCCTATCAAGATTTCAAGTGTGAGGTTCTTGACAATTCATTTTTCCTTTAAGCATTTGGAAAAGTGTTGCTTTTGATGCCCCCAAACTCCCATATGTTGTGTTTTGTTATGCACAGTGATACTGTAGAGTCAGGTGACATGTTTCTTCCCATTCTTATACCTCCTATGTGGTCTTGGTGCACTAAATCTCCTGTCTGTTGCTCCTCCTCTTCCTCTTCCTCCCCACTACTACTACTACTACTATTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTCTTCTCCTCCTCCTCCTCCTCCTCCTTCTCCTCCTCCTTCTCCTTCTCCTCTTTCTTTCTCCTCCGCCTCCTCCTCTTCTTCCTTCTCCTCCTCATCCTCTTTTTCCTCTACTTCTTGTTCTTCCTGTTCTTGTTCTTATTTTCCTTGTTCTTCTTTTTGTTCGTCTCTTTCTCCTTCTCCTCTTCCCCTCTTCTTCCTTCTCCTACTTCTTCTACTTCTTCTTCTACTTGTACTTCTTCTACTTGTTTTTGTCCTTCTTGTTCTTCTTTTTGTTTTTCTTCTTGTTTTTATTTTTCATATTCTACTTGTACTTTGCTTTTCTGTGTAGCTTTGGCTCTCTTGGAACTTGTTCTGTACACCAGGATGACCTACCTAAAACTCACAGAGACCTGCATCTGTTTCCCAAGGGATTATGTGCTTGTGCCAACTCCATCAGGTTTCTGCCATCTGATTATAGACACAGGATCATTGTCATTGTTTGTTCCCTTCCCTGCTTGTTTCTCATTTCTCTTACCCTTGATTGCCATGTCCCCGAGTCCTGGCTCTGTCTCCTTCATTTCCTCACAGCTCTCTGATGGTTTTTCCACCTTTCCTGGTAGCTCCTATTTGGCTCCAGAATTAAATCCTTCTTGGTCTCCTCTTTGCTCCCTGAGGTCCTTCTCTGTCCACTGCTAGATCCCCTTCCCTCTGACCTTTCCACATGACTCCTCTGTCACCTTCTCCCATTTTCCCTCTGTTGTCTTTTTTGAAGCTTTCTCCTTACCCTAGGGACACAACTCCTAAGTCATTCATCAGTTTCCTCCTTAGATGACTTCCAAGTTCACACTTCTCTGGAACTTGGGATCAATATTTGGAGAACTTTGTGATTGTTTGCTGCAATTCTTTGGAAATTCCTGCAGAAAACTGGTCTTGATAGGCTGTGGTGAATTAGGGACAAGTGAGAGAATTGGATGGGATGAAATTAACTCTAATTTACACCTAACGGGAGGGGAGGATGGAGGAGTGAGGAAGGAAAGGGGGAAGAGGTGAGATAGATGATTTAGCTGTAGAAAAAAATCTCATAGAGAAAAAGATACATTCAGGAGAAAGGGGAGAGGGAGCGATCAGATGAAATGGAGAAGAATCAGAATAATGATAAAGAAATACACACACACACACACACACCACACACACACACAGACACACAGACACACAGACACACACACACACACACACACACACACACACACACACACACCACACACACACACACACACACACACACACACACACACACACACACACACCACACTGAGATCTACCACTCTAATCACCTTCTTCTGCTGTTAGTTACCTATCACATCTTTCAATGTAATCTACCTTTGTTGTCTATCATGTATCTGTCTCTATATATTCTATATATCCCTCAGTAGCCTATCATCCATCTGTCTACCATCCTCCTCTTCCCAATCAATCCCTCTATCAAGTAGTAAGTCACCTACTTCAGACTCTGGGTGTAAATCTATCTGTCTGTCCATCCATCCATCCATCCTTCCGTCCATACATTGATCCTTCACTTATTTATATCTACATCACAAAACAAAGGGATGAGCAGAAGGATGTGTCAGAGAGGGATGTGGATAGACTCATGTGTCCAGGAAGGGATTCAGTGACTCATCAAGAGATTGGAATGAGTCATCCAAGCAGGATGAGCATGTTGGGCAGAAAACAGGAGCACCTATGACACCATGCATGTACTGGCCTCAACCTTCTCCATCTCCAG
Seq C2 exon
ATCCAGAGCAATGAGGAAGGCATGCAGCTGGTTACCGAAATGGGCCAGACTTTCCAAGATGTCCATCTCTTTTGGCTGGGACCAGTGATCCCTGTGCTGAGGATTGTTGACCCTGCATTTGTTGCCCCCCTGCTCCAGGCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048440-Cyp4f16:NM_024442:2
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(3.0=21.2)

							
A:
NA

							
C2:
PF0006717=p450=FE(10.3=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000003416





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000131058
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr19:15564995-15571644 
HsaINT0044530
(CYP4F8)
Human
(hg19)
chr19:15675082-15682544 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr7:8607730-8614913 
BtaINT0005474
([1])
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr12:48581766-48588585 
LOW PSI
DreINT0054403
(cyp4f3)
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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