Special

MmuINT0005328 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr7:7067394-7069422:-
Coord C1 exon
chr7:7069324-7069422
Coord A exon
chr7:7068912-7069323
Coord C2 exon
chr7:7067394-7068911
Length
412 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
CAGTATTTCTCTGTATTCAGGTT
3' ss Score
7.93
Exon sequences
Seq C1 exon
GACTTGAACTTTCTGGGATTCATGATTCAACTCAGGTGGAATCTTGTGGAGATCTCTCTGTGCCTGCACTAAGATTCCTGACTCCGTGTTTATGGACAG
Seq A exon
GTACATTTTGTCTGTTTCTTTTGCAACGTTTTGAAACACAGGCTTTCCTCTATTGTGTTAGTGTGCACTCTACCCAGGGCAGTCCTTGAGTGCAGGCTCTTCAGTTACCATGTCTTAGGGGGCTAGACAGTGTTCTGCACCGTGTCCTGCATCTCCAGCAGCTGAGGCTTGCAGAAAGTTATTGGTGAGGAGTGTGTTACAGTTCCTAGCATGCCTCCCTGTGATTCTCGCTGCCCCTAAGTTCTCTAGACCTATGAACTTGAAAAATTCAGCATGGTAACTGGCCCTATCCACCCTGAACTAGACCCTTTGTTCCATGAGAAATCCCAGATCACCATTAGTATTAGGTAGTATCTGTCTGTCTGTCATTCAGCAGTCTATATGCCACTCATCAGTATTTCTCTGTATTCAG
Seq C2 exon
GTTGTTGGATCAAAGTGGAGAGTGAAACACCCCCCTTTAATCAAAGCCTGTCCACAGAAGGAGGTGTCAGTCCGTCCACACTGCAACAGCACATGCTGTGCTGTGCTGAGACACCCGTGCTAAGCACGGACAATGTGACGATCCTCCAGACCTCCTCGGGCCTTCTCAGGCATCAGGTGACTTCCAGTGGTGGGGACACCCCCACGAACACTGAGAGTGGAGAGGCCATTCAGAGTGAGAAGAAGAACTGCAAATGCACTTACTGTGGCAAGATCTTTACCAGTATATCCCACCTCAATCGGCACTGGAAGATACACACTGGGGAAAAGCCTTTTCAGTGCACCGAGTGTGGCAAGTCCTTCAGCCAAAAAGCCTTTCTCATTAAGCATTTCAGAATGCACACCGGAGAGAAACCTTATAGGTGCAGTGAGTGTGGCAAAGCCTTCAAGCATAATATCTCCCTTATTTCTCATCAGGGACTCCACACAGGAGAGATGCCTTTTAAGTGCACTGAATGTGGGAAATCGTACAGGAGCAAAGAAGGCCTTAAGGTCCATTATCGATTTCATACTGGTGAAATGCCCTTTGAGTGTAGTGAATGTGGCAAATCGTACAGGAGCAGAGAGGGCCTTCTGAATCATTTCTACAGTCATACCGCGGAGAAGCCTTTCAGCTGCGGTGAATGTGGCATGTATTTCACCCAGAACTCCGAGCTCATTGAACATCTAACAGTTCACGGCAAGCCTTTCAAGTGCAACGAGTGTGGACGAGTCTTCAATTCCAGCTACAACTTCATTAGACACATGAAAGTGCACGTTGTAGCAAAGCAGTATGCGTGCAGGGAGTGTGACAAGGTGTACTGCAGTAGCTCTAGCCTGTACAAACACCGGAAGATTCACGCTCGATAAACCCATAGGAGAGCCATGAGGGGAAGAGGTCCCTTATTCATCTCCATGAACACCTGAAATCTCAGCAGGAGGAAAAAAGAAGTGTCTAACGCTTCAAAGCAAGCGTGGGCATCATCCAGCCACACCTCTAGCCCATAAAAGCAGAGCGGTCACTGGACTAGGATGCATCCCTTGGATCCTGGGATAGGCTCTGATCGGACCATAAGTGTTTTCTGAAAACAACACGCACACCCTGCATAGGTCTCTGGGTGCAGAGTTTGTAGAGAGCAGCTTCAGCCGCTGGCAAACCTTCAGCCCTAGGGTTGAACCTGACCTTAAGGAGAAGTTCTGAGAGTGGCCTTTGTGAGACACAGCTACTGAAGCTTCCTGCTCTAGTAGGTATACTGGAACATGATGAGGACTGCTGTCATCTTTCTGTTACCCAGGAGTTGACACCAGGGAGCTCCGGGAGACTGAGCTCTGTGTTCTTGACTTCACAGAGTGCAGTTTCCATGCTGCTGAGTTTGGATGACGGGGGAACGGAGTGGTTTAATAATGAGACATGAATTCTCTTTTTACTAAGTGTTGCAGTGCCCTGAATAAATGTGTTTTCCTTCTCTGGAATCTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
-5730403M16Rik:NM_172738:4
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:
ENSMUSP00000072585





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000077801
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr19:58003580-58004223 
ALTERNATIVE
HsaINT0187182
(ZNF419)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr18:64857802-64858450 
LOW PSI
BtaINT0166069
(ZNF772)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr15:651464-654233 
LOW PSI
DreINT0140948
(si:ch73-144d13.7)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AGATCTCTCTGTGCCTGCACT

				
R: 
AGTGCCGATTGAGGTGGGATA

				
Band lengths: 
356-768

			

		

	





	
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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