Special

MmuINT0045367 @ mm9

Intron Retention

Gene
ENSMUSG00000024055 | Cyp4f13
Description
cytochrome P450, family 4, subfamily f, polypeptide 13 [Source:MGI Symbol;Acc:MGI:2158641]
Coordinates
chr17:33066415-33067067:-
Coord C1 exon
chr17:33066800-33067067
Coord A exon
chr17:33066482-33066799
Coord C2 exon
chr17:33066415-33066481
Length
318 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
TGGTCTTGCTTTGTGTGCAGGAT
3' ss Score
8.64
Exon sequences
Seq C1 exon
GTCTGACAGCAAATACATTGCTGCAATCCTGGAACTTAGCTCCCTTGTAGTGAAACGGCACCGCCAGCCCTTCCTGTACCTGGACCTCCTGTACTATCTCACTGCTGATGGGCGTCGCTTCCGCAAAGCCTGCGACCTGGTGCACAACTTCACAGATGCTGTCATCAAGGAGAGACGCAGCACCCTCAATACGCAGGGTGTTGAATTCCTAAAGGCCAAGGCTAAGACCAAAACTTTAGATTTTATTGATGTTCTCTTGATGGCTGAG
Seq A exon
GTGGGTTTTTCTGGAATCTAAGTTGCATGGATCTCATTGTTCAATCTTGATAGAAATTGAACTTAATCTAAAGAGTTCTAGTGAGACATAGATGGTGACTGTAAAATGGAGGGTCCAGTTAGAGGTAAGTTTTAGAGGTAGCTCTGCTGAATATGGTGTAGAAGAAACAAAGAACAGAAAACGGAGAAGAAAACTGTGAGGCAGGCTCTGAGGATAATACAAGGGGACCCCAGTGCGCAGTGGGTGTCAGAACTTGTTGAAAGACAGACTCAGACGTGCTCAGATACTGTATGAGTTGTGGTCTTGCTTTGTGTGCAG
Seq C2 exon
GATGAACATGGTAAGGGACTATCGAATGAGGACATCCGAGCAGAGGCTGACACCTTCATGTTTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024055-Cyp4f13:NM_130882:7
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=0.043
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0006717=p450=FE(27.6=100),PF056518=Diacid_rec=PD(7.0=5.6)

							
A:
NA

							
C2:
PF0006717=p450=FE(4.8=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000074733





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000074733f1463A, ENSMUSP00000123282
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr19:15623376-15623698 
ALTERNATIVE
HsaINT0044531
(CYP4F8)
Human
(hg19)
chr19:15687647-15687983 
Rat
(rn6)
chr7:14568738-14569181 
Cow
(bosTau6)
chr7:8516861-8528393 
LOW PSI
BtaINT0007900
([1])
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr12:48574122-48575310 
DreINT0054414
(cyp4f3)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CAAATACATTGCTGCAATCCTGGA

				
R: 
CTCCAAACATGAAGGTGTCAGC

				
Band lengths: 
326-644

			

		

	





	
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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