Special

MmuINT0045388 @ mm9

Intron Retention

Gene
ENSMUSG00000073424 | Cyp4f15
Description
cytochrome P450, family 4, subfamily f, polypeptide 15 [Source:MGI Symbol;Acc:MGI:2146921]
Coordinates
chr17:32829503-32832340:+
Coord C1 exon
chr17:32829503-32829630
Coord A exon
chr17:32829631-32832218
Coord C2 exon
chr17:32832219-32832340
Length
2588 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
CCCCTTCTTTTTCTGCAAAGGCC
3' ss Score
7.88
Exon sequences
Seq C1 exon
GGGATGGGCTCTTGCTGAGTGATGGTGACAAGTGGAGCAGCCACCGTCGCATGTTGACACCTGCTTTCCATTTCAACATCCTAAAACCCTATGTGAAGATTTTCAATGACAGCACCAACATAATGCAT
Seq A exon
GTGAGTCTCTGAAACCCAGGTTCTCAGCTGGCATCTGAGGCAAAGAAACTTTAGATAGGTCTGATCTGTTCTCTAAATGAGTGTGTTAGTTCCATTGCTATGAAGAGACACCATGGCCAAGGCAACTTTTATAAGGGACAATATTTAATTGGGGCTGGCTTACAGTTTCAGAGGGTCAGTTTGTTAACATCATGGCAGCAAGCATGTCACTGTCCAGGCAGGCAAGTGCTGAAGAAGGAGCTGAAAATTCTGCATGCATTGTGATCCGACTGCAGTTAGGAGCGACTGTCTTATAGGCAGCTAGGATGAGGATCTCAAAGCCCATCCCCACAGTGACACACTTCCTCTAACAAGGCCACGCCTCCTAATAGTGCCACTCCATGGGCCAAGAATATTCAAACCACCACTGGGGCGATTGTTTTATTTCATTTTTTTCTCTCCACTTTGTATCCAAGATAATAGCAAAGAGCCATTGAGTGCTCACGCACGGTGAGTGCTTACAAAGAGTTAGGTTCTAATTTCTCAGGATGTTGCCCTGAAAACTACATGCAAACTTGATGACTATTTAGAATCTTTCAATAATGCGCAAGGCACTTCCACACACACTGATTTTGAAACAATGAGGTCTGATGTTACTAACAGGGGTATAGGTCAGGGGGTTGGCTCTTCTAGACAGAGTTTGGGTCACTCGTGGGCAACATATGATCAGCTGTCAGTCAGCTTTCTCGATATCAGCATAATTCCTTTATGCTTGGGATTTTACCAACTTCAAGCTAATTTATCATAGTTTCAGCATCCTGGGCTTGTTCCTATGGCACAGAGTTCCATAGGAAAGAAGCTGGAAGTCACCTGAAGCTTAGGTTTCATTGAAGTTATACCCTCTTCCTTTTTCCAGTGTATATTAGTCAAAGCCATCGATCTAACACGAAAGCAAAGGGCAGTAGAGTAGGCTCAGCATTGCAAGCTAGACCGGGCAGGTGTTGAGCTATTTTAACTTACATCTCAGCCACGTGTCCCTTGTTATTTGCTATTTCTCCTGACCAAATGCTCACAGTCCTTCTCCTATCATGGATGCTCCTTCTGCCCTTTGGCTCTTCCTTTTTCCTCCCCTGGTCTCTCCCGAGACCCCTCACTCATTCTCAAGTCCTGCCTTTTATTGATCAATTTACTCAGGGAGCAAGGTTTGTACAACAAAAGCTGACATACCTGAGAATTTGACTGTCTTGGGGCAACCAGATGTTAGGATACAGAATTTAACATTTGAATCCATAGCAGCACCAAACCAACCCCAACGCTTGTGGATTCTGCCAGACCATACAAGATTTCTTATTCAGATATGGAAGGTAGTCAGGTACTCCTGGTGCACTCTTGGCTTCCGTCCTTTCTTGAAAGCATATAAATTTCATGGGGTATTAAAAATGGCCTTCAGAGGATGGCAACATATGCCCTCTATTATGTAACTTAGTTTTAGGGACTCTGCTTTTGTAACAAGCTGAAATAAGCCTGATATTTGACCATAGAAGACCATCACTGCACCTCTCAAGGCTTTCTGAAATATCTGTGTCCAGGTGAAGAACACTGGGATGATTTTTTTCTTGAAACACTTAGAAAGGGTGCTTAGAAAACAATGGATAACTGCCATACCTGTCATAGAGATAGCTTTAAGTCCAACTTATGACACCCAAGATAAGAAATAATGCCATTTACTGAATTCTTAACATGTTGGGGAACTGATGGTCATGACCCAATTCCATAAATTATGCTGCAAATTTAATTTTAACCAACCTGTGAGATACAAATTATTTTTTCCTCATTAAGAATGAACCTGAGAGGCCCATTGGACATGCAAACTTTATATGCCCCAGTACAGGGGAACGCCAGGGCCAAAAAGGGGGAGTGGGTGGGTAGGGGAGTGGGGGTGGGTGGGTATGGGGGACTTTTGGTATAGCATTGGAAATGTAAATGAGCTAAATACCTAATAAAACATGGAAAAAAAAAGAATGAACCTGAGGAGTCAGGCGGTAGTGGCGCAAGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGAGGATTTCTGAGTTAGAGGCCAGCCTGATCTACAGAGTGAGTTCCAGGACAGCCAGGGCTATACAGAGAAACCCTGTCTCGAAACCTCCCTCCCCCACCCCCCCCAAAAAAGAATGAACCTGAGGTTTGGAGGCATAAAGGAACTTGCCAGAGAGTAAGTGATCCAGAAATAGTGGCACACGGGCTCCATCATGGTTTATCCGATGCGGTCAGATCACCTTGTTGCTGAAGACATATCAAGTGAGACAGAGGACAATAAATGAGCTGACTGATGGTGCACAGAGCATGGCAGTCAGAGCTGAGGCTTAACCACACAGGGCTTCTGGTCTCCATTTTTGGGTCTTGTGTCCGACATAACAGTTTCACTCCCACTCATGACTGGTAAACTCTGGGGTCAAGTGTCAACCCTGGTCAACCCTGGAAATATGGGAGGCTGATGTTGGGTATCAGTTCTTGTAGTTGTGACTGTTGACTGGGAAATATCTCAAGAAGTTATGATACCCCTTCTTTTTCTGCAAAG
Seq C2 exon
GCCAAGTGGCAGCACCTGGCCTCAGGTGGCAGCGCCCGTCTGGATGTGTTTGAGAACATCAGCCTCATGACCTTGGACAGCCTGCAGAAATGTGTCTTCAGTTTTGATAGCAACTGCCAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000073424-Cyp4f15:NM_134127:5
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=FE(9.1=100)

							
A:
NA

							
C2:
PF0006717=p450=FE(8.6=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000129264





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000008801
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr19:15680520-15682388 
ALTERNATIVE
HsaINT0044471
(CYP4F12)
Human
(hg19)
chr19:15791330-15793198 
ALTERNATIVE
HsaINT0044471
(CYP4F12)
Rat
(rn6)
chr7:14896480-14898927 
LOW PSI
RnoINT0044597
(Cyp4f4)
Cow
(bosTau6)
chr7:8556211-8559085 
LOW PSI
BtaINT0005476
([1])
Chicken
(galGal4)
chrUn_AADN03022412:1518-1522 
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr12:48577593-48577805 
DreINT0054410
(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






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