Special

MmuINT0051107 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr1:46154843-46156443:+
Coord C1 exon
chr1:46154843-46154930
Coord A exon
chr1:46154931-46156262
Coord C2 exon
chr1:46156263-46156443
Length
1332 bp
Sequences
Splice sites
5' ss Seq
TCGGTAACA
5' ss Score
5.35
3' ss Seq
TGCCTCCTCACTTATCACAGAGG
3' ss Score
6
Exon sequences
Seq C1 exon
GCAACAAGATGGTGATTTAGAGTCCGATGTCATTGATGAGAGCGGTATTCCAAAAGCAACCACTACTGCAAGAGAGAAAGACATCTCG
Seq A exon
GTAACAACTCACTTCTGTCAGTAAAACTACAAATAGAAGGAAGACCTCAAAATACTGCGTGTCCTTGAGATTATTCTGTCCTTTCTTGTGTATCTTTGTGAGTGCAGGAATGAACAGAGAGTTGCATCAGATTATTCTATTAGACAAGCATTTTCTCTCTTGCCACCTAAGGTCCCAGTTAAGCAATTCCAAACCTGCCTGATCCCTTCCTAAAGTTTGTCTCAGTCATATACATCCTTACCCAACATTATTCTTTTATGATAATTTTTCAGAGTTATGATAATTGATATTCTAAAAAGCACATTAACTTATTTTAGAAGCAATAATTCTGGTGTTTCAAACGAATAAACATTTTTTTTAAATGTATGCATTAAGAATTATAACATCATAGGCTAGAGAGATGGTTTAGAGAACTGGCTGTTGTACTGGACCTGGGTTTAATCCGATGCCCTCACATGGCACTTTATAACCATCTCCAATCTCATGGAGTCTAACACCCTTTTTTGGATTCTGTGGACAACATGCATGCATGTTGTGAACAGTCATACATGCAGACAAAACACCTAAACACATACAAATAAATAAAAGCATTGTGAATTTGAAAACATTTTGAACTTTAATTTTTGTCCCAAGTACTGTGTAAATAATTATGAAGAATGGAGAATTATCATATTTTAAAGTGAGAATTAACATGTATAATATTTATAATACAATAAAGGATAGAAATGGGCTATCTTAATCAGTGTTTTACTTCTGGGCCTGACATGGTTTTTGAAACCTCAAAGACCACATTAGTGACATACTTCCTCCAACAAGGCCACATCTCTTAATCAGTCCTTCTGAACAGTTCACCAACTAGGGACTAAACACACAAATATATGAGCCTATGCCTTTCCTATTCAAACCAGCACAATTCAGTTCTGTTGTATGCTTCTAGAGTTAGTGTAAAAGAATACTGACTTGAATGCAGCTTTTATGATTGACCTCTGATCATCAAACATAAAAATGCAGACCTAATAATATGTTCCAAAAGTTTACAAACATCAACCTGCAATTGAGCATGTACTCTATTCCATACCTCATCTATTTGATGATGTAACTTTGACGCTTATGGTATAGATGTGAACTAAGAAAAATTGCTTTGGCTTCCAGGAAATAGCATTTAAAAAACTTAAGAGATCTTAAATAATGCTTATGTGACTTTCACAAAAGTGCTTTGTATTATTTATAAATACTTTGTTCTCCCCAGATGCATTTTCCCCTGTGGTTTTGTGTTCTGACCCCACTCTCCTTTACTGCAGTACTAAATCTCTGCCTCCTCACTTATCACAG
Seq C2 exon
AGGTATTACTACTACATTCGCCATGGACTTGATACTGATCACGTGGCCCCAATGGAAGACTCTTGGTTGGAGCACGTATTACAATTGGTTCCGCAGCATCTGAAAATCCTGAATAATAGCATCATGGTCTTGTCCGATGAGATAAGAGAAGATTATCTTCTTAGTGTAAAGAAATCCATAG
VastDB Features
Vast-tools module Information
Secondary ID
-Dnahc7b:NM_001160386:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
No protein impact description available





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:
ENSMUSP00000068738





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000068738f4197A, ENSMUSP00000068738f4198A, ENSMUSP00000068738f5803A, ENSMUSP00000068738f5804A, ENSMUSP00000068738f5805A, ENSMUSP00000068738f5806A, ENSMUSP00000068738f5807A
  



Associated events






Conservation


Human
(hg38)
chr2:196026941-196027959 
ALTERNATIVE
HsaINT1011574
(DNAH7)
Human
(hg19)
chr2:196891665-196892683 
HsaINT0049944
(DNAH7)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr2:84987846-84989689 
BtaINT0050686
(DNAH7)
Chicken
(galGal4)
chr7:9273998-9274235 
ALTERNATIVE
GgaINT1011573
(DNAH7)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr9:25242638-25244158 
LOW PSI
DreINT0058163
(dnah7)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCAACAAGATGGTGATTTAGAGTCC

				
R: 
TTCTCTTATCTCATCGGACAAGACC

				
Band lengths: 
238-1570

			

		

	





	
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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