Special

MmuINT0045408 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr17:32665221-32665839:+
Coord C1 exon
chr17:32665221-32665303
Coord A exon
chr17:32665304-32665661
Coord C2 exon
chr17:32665662-32665839
Length
358 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGG
5' ss Score
7.65
3' ss Seq
ACCAACCTGTCCTCCCGCAGGAA
3' ss Score
11.73
Exon sequences
Seq C1 exon
GTCTATGACCCCTTCCGCTTCGACCCAGAAAACCCACAGAAGAGGTCTCCTCTGGCTTTTATTCCCTTTTCTGCTGGGCCTAG
Seq A exon
GTGAGGTGAGAGGGCTTGCGGTGACTGAGGGGCTGACAGCTGGGACAGGGGAAGTTGGTATGGTCAGGTTCTGGGACTCCTTCCTGCCCTCTACTCAGGGTATGTGCAAAGATCTAGAAATCCCGGGGTGGAAAGTGAAAGGTGGGGGCCCTGTGCTCAGAGCCCTGTCCCGATCTGTCTTGGGCGCTGAGTCTGAGAGAGCTTTGGGAGTGGCAACACAACACTTGGCGTCCCAGGAGCTTCAGCGCACCTTCTGCCCCTCAGGCTGGCGAGGCGAGACAGGGACCAGGTCAAGTTCAAACCTTGAGGGCTGGTTAAGTCTCAGTGCAGTAAGAGTCACCAACCTGTCCTCCCGCAG
Seq C2 exon
GAACTGCATAGGACAGACTTTCGCCATGAGGGAGATGAAGGTGGCACTGGCGCTGACTCTGCTGCGCTTCCGCGTCCTGCCAGGTGACAAGGAGCCTCGCCGGAAGCCAGAGCTGATCCTGCGCGCAGAGGGCGGGCTGTGGCTGCGGGTGGAGCCTCTGAGCAAGGGCACTCAGTGA
VastDB Features
Vast-tools module Information
Secondary ID
-Cyp4f17:NM_001101445:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=NA A=NA C2=NA
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
NA

							
C2:
NA

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000129514





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr19:15695018-15695369 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr7:8585378-8585588 
ALTERNATIVE
BtaINT0046311
(CYP4F3)
Chicken
(galGal4)
chr8:20790353-20790582 
ALTERNATIVE
GgaINT0035779
([1])
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr12:48568632-48570703 
LOW PSI
DreINT0054407
(cyp4f3)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CTATGACCCCTTCCGCTTCGA

				
R: 
TCACTGAGTGCCCTTGCTCA

				
Band lengths: 
259-617

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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