Special

MmuINT0051081 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr1:46290324-46293667:+
Coord C1 exon
chr1:46290324-46291196
Coord A exon
chr1:46291197-46293437
Coord C2 exon
chr1:46293438-46293667
Length
2241 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
AATATTCATTTTAAATTTAGTCA
3' ss Score
3.36
Exon sequences
Seq C1 exon
GTCCTCAGAGTATATTATGATCGCCTTGTGGATAATGCTGACAGAAGCTGGCTTATTCACTACATACAAGAAATTCTGAAAAATTACATGCAGGAAGATTTCCATGACCTATTTAAAAACTTGGATTTTAATCAGGATGGCACTGTTGAAGAAGACGATTTAAGAAGTTTAATGTTTTGTGATTTCCATGATCCTAAGAGGGAAGATTTTGGCTACAGAGAAATTGCAAATGTGGATGCTCTCAGGATGATTGTCGAAGGCCATCTAGATGAATATAACAACATGAGCAAAAAGCCCATGAATCTCGTCTTGTTCAGATTTGCCATAGAACACATAAGCAGAATTTCTCGAATCTTGAAGCAGCCACGGAGCCACGCCCTCCTGGTGGGGGTGGGCGGGAGCGGAAGGCAGTCAGTCACCAGACTTGCTGCACACATGGCTGATTATTCACTATTTCAGGTGGAAATCTCCAAGGGCTACGGTAGCCATGAGTGGCATGAAGATCTGAAAGTGATCTTAAGAAAATGTGCAGAGAATGACATGCAGGGGGTCTTCCTGTTCACAGATACACAAATAAAAAGAGAGTCATTTCTAGAAGATGTCAACAATCTCCTAAACGCCGGGGAGGTTCCAAACCTCTTTGCTTTAGATGAAAAGCAAGAAATATGTGAAAAGATGCGTCAGTTAGATCGCCAGCGGGATAAAACTAGACAGACAGATGGGAGCCCCATAGCTCTTTTCAACATGTTTATTGACCGCTGCCGCAACCAGCTGCATGTGGTCTTGGCCATGAGCCCCATCGGAGACGCATTTCGGATTCGTCTTCGGAAATTCCCTGCTCTTGTTAACTGCTGTACCATTGACTGGTTTCAG
Seq A exon
GTATTTCCGTGTAAAATTTACATAGAGTTCTCAAAATGTTGAATCTCCATCATCACCGTGAAATATTATATAGACTCCACCTCAAAATGATGTACACTAGCAAAATCTTTGATTTTTATCATAATGTATCATATGCAGTTATACCAGCATAAATCATTATAGGATATTATCCATTAATATCAATATATCCCAGAACAGAATTTTAGGATTATTCTGTCCTTATATCAGGATCCTAATAGGAAGCACCGTACTCGAAGTCCTAGCTGAGAAGAACTTGGGAGGGACTGGTCACAGAAGCACTGTGTGGGGAAGAGAGTCAAGAGGGCAGGATGGGATGACATGTAGAAGTCAGACAGACCCCCACCCTCTGGCTTATTCCACCCTCTTCCCTATTTACCAAACCCAACAAAAATTCAAGGAAAATCACTGTGGGAATTTTTGTAGTAGAGTTTTGTCTCAGGAAGCACAGGCTGAGACCAGAGAAGCTATGACAAAGATGGTGGGGTTGGGGGAGAGAAAAGCAGTAAATGTGTGAGAAGTTAGACTTCCCCAGGCTTTCTGTGGTACCACGGAGCAGCCTCCACACTTGCAGCGGGCCTGTGGCTATAGTAGAAATCCTGTATGTAGATCTGACACAACCACTTAAGATGCTGGAAATTTACATAGGCTCTATACCTCTATGGCCTCACAATTTACTTCAGGTGAGCATCCTTTGTTCTCTTCTTCCTTGCTTTGTACCTAAGAGGTAATATTGTATCAAGGAGAGATGAGGAGGTACATCTAGGGAGCCAAGGCTTTCTACAGACAGCCTTTAAAAGAAAAACAGAACAGAACAGAACAGAACAGAACAGAACAGAACAGAACAAACAGAACAAACTCACAAAACTGACCAGGACCAAGATCTTGGGAAAGATGTGAACTAGAGAGAATGGGGCTGGATGGAAGTGAAGGGATTGGGATACTGGGAGTAGAGGAACTCAGAGGGAGGTGGCATGGTTGAGATCAGAAAGAGAGGAAGGGCCAAATCAGATACAAATTTGCAAGTTGGTAGGGATCTTTTCAAATGCACACACACTGAGGACTTCCTGAGTTGTACTGGGAAGTGTGCTATGGGTGGTTTCTACTTTGTAAAGACATTTTGTGTCTTTCTGAAGAACAAAGGCAGCAAGGGTAACAGTGGAACTTATTGGCTAAAGCTAACAAACACGTGAGTGAGGATGGCTGTGGTGTGGAAAGAAGGGAGTTTGGACATGATGAGGAGAAGGGAGAGTTAGGCATGCAATGCTGTAGAACTTTCTCATGCAACACATAGAGGTCTGAGGAAGTGGAGCAGAGGAAGGATGACCCTGTGTTTTGACAACTTGGTGACTGATGGGGAAGTTTGCTGAGTTGAGGAAGAATACAGCTCTGATGGGGAAGGAGATATTGTGGTACAGGCTTGTTGACATTGAGGTGCCTGAGTTATCCAAGAGATAGGTTGTAGTCATTTATGTGATTCTGTCCTTTAACGGGAAGTTATAAAAGAAGAGAGGAGGATTAAATTAAATAATACATAGCATACACAGGGAAACACACATTGAGTTTAGATCCCTGTCTTAGTCAGGGTTTCTATTCCTGCACAAACATCATGACCAAGAAGCAAGTTGGGGAGGAAAGGGTTTATTCAGCTTACAATTCCATACTGCTGTTTATCACCAAGGAAGTCAGGACTAGAACTCAAACAGGTCAGGAAGCAGGAGCTGGTGCAGAGGTCATGAAGGGATGTTCTTTACTGGCTTGCTTCCCCTGACTTGCTCAGCCTGCTCTCTTACAGAACCAAGACTACCAGCCCAGAGATGGTCCTACCCACAAGGGGCCTTTCCCCCTTGATCAGTAATTGAGAAAATGCCTTACAGTTGTATCTTATGGAGGCATTTCCTCAACTGAAGCTCCTTTCTCTGTGATAACTCCATCTGTGTCAAGTTGACACAAAACTTGCCAGTACAACCCCCTTTCCCTTTCTTTGTCCTGTTAACACTTGTTAACTATGTCTGTAAACCCAGAGTAAACTGGAGAGAGTTGCTACCAGCCCTGGCCACCACTGTCTCAAGCAGGCAAGGGCAGGAAGAAGGCTCTTCATGAGCATGTCTATCCCAAACTATTCCTCTCTGTTTCCAGCCCACATATTGAAAAAGGCTGCAGCTGTGACAGTATCATATTACTGACCTTGATGAATTGCTAAAATATTCATTTTAAATTTAG
Seq C2 exon
TCATGGCCAGAAGATGCTCTGGAAGCAGTTGCTTCAAGGTTCCTGGAAGACATTGAGATGTCAGAGGAAATCCAAGAAGGCTGTATTGACATGTGTAAAAGGTTCCACACGTCTACTATCAACTTATCAACGTCCTTCCACAATGAACTTCAAAGATATAATTATGTGACTCCCACCTCCTACCTGGAATTGATCTCTACCTTCAAACTGTTGTTAGAAAAGAAAAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
-Dnahc7b:NM_001160386:42
Average complexity
IR-C
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, ENSMUSP00000068738f5806A, ENSMUSP00000068738f5807A
  



Associated events






Conservation


Human
(hg38)
chr2:195861947-195864148 
ALTERNATIVE
HsaINT0049924
(DNAH7)
Human
(hg19)
chr2:196726671-196728872 
ALTERNATIVE
HsaINT0049924
(DNAH7)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr2:84872301-84874251 
ALTERNATIVE
BtaINT0050660
(DNAH7)
Chicken
(galGal4)
chr7:9216407-9217283 
LOW PSI
GgaINT0050156
(DNAH7)
Chicken
(galGal3)
chr7:10707212-10708089 
LOW PSI
GgaINT0050156
(DNAH7)
Zebrafish
(danRer10)
chr9:25182033-25182169 
LOW PSI
DreINT0058164
(dnah7)
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
  • 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"