Special

MmuINT0075622 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr17:35457766-35458495:+
Coord C1 exon
chr17:35457766-35458035
Coord A exon
chr17:35458036-35458219
Coord C2 exon
chr17:35458220-35458495
Length
184 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
CTGACCCAGGGTTCCTGCAGGCA
3' ss Score
3.13
Exon sequences
Seq C1 exon
GCTCACACTCGCTGCGGTATTTCGAGACCTCGGTGTCCCGGCCCGGCTTCGGGAAGCCCCGGTTCATCTCTGTCGGCTACGTGGACGACACGCAGTTTGTGCGCTTCGACAGCGACGCGAAGAATCCGAGATATGAGCCGCGGGCGCCGTGGATGGAGCAGGAGGGGCCGGAGTATTGGGAACGGAACACACGGAGAGTCAAGGGCAGTGAGAAGAGATTCCAAGAGAGCCTGAGCACCCTGCTCAGCTACTACAACCAGAGCAAGGGCG
Seq A exon
GTGAGTGACCCCTGGTCGGAGGTCACGACCCCTCGACGTCCCTACACAGGGGCCAGAGACCTCCTGCTTCTCAAGTCCCAGGTTCAGGAGCAGAACTGACCCGGGACCGGATTCCCTTTCAGTTCTGTGGAGTCGCGCGTGGGCGGGGCCGGGGGAGCGAGGCGCTGACCCAGGGTTCCTGCAG
Seq C2 exon
GCATTCACACCTTCCAGAAGTTGTCTGGCTGTGATCTGGGGTCAGATGGGCGCCTTCAAAGCGGGTACCTGCAGTTCGCCTATGATGGCCTTGATTACATCGCCCTGAATGAAGACCTGGAAACCTGGACAGCAGCAGATGTGGCAGCTCAGGAAACCCGACGCAAGTGGGAGCAGGCTGGTGCTGCTGAGAAACACAGGACCTACCTGGAGGGCAAGTGCCTGATGTGGCTCCACAGATACCTGGAGCTCGGGAAGGAGATGCTGCTGCGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
-H2-Q1:NM_010390:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





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:
ENSMUSP00000072942





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000100662
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr6:29894707-29894954 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr23:28357482-28357679 
ALTERNATIVE
BtaINT0026387
(BOLA-NC)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr16:257773-258011 
GgaINT0123608
(F1NKE5_CHICK)
Zebrafish
(danRer10)
chr19:7155296-7178392 
LOW PSI
DreINT0095821
(mhc1uba)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GAATCCGAGATATGAGCCGCG

				
R: 
GGGCGATGTAATCAAGGCCAT

				
Band lengths: 
254-438

			

		

	





	
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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