Special

MmuINT0051046 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr1:46173014-46176224:+
Coord C1 exon
chr1:46173014-46173139
Coord A exon
chr1:46173140-46176104
Coord C2 exon
chr1:46176105-46176224
Length
2965 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
TTATTTTTTATCTCTTTCAGGAA
3' ss Score
12.72
Exon sequences
Seq C1 exon
AATGGAAGTCTTGCCAAAGCCATGGAGGAGGTCTTTTCTATCTGCATGCAGTTACATTAGGGATCACTTGAATGCAATGAACCCTATGATGCTGGCTGTGCTGGATCTGTGGCATAGCACTTTTAA
Seq A exon
GTGAGTATTTCTGGGCTTTTTGAAACTAAGAAAAGTTTATTTGTTTAATGTCTGTGAGTGCTTTGACTACAGGTATGTGTGTATACTATATGCTGGGTACCTGGGGAGGTCACTGGATTTCCCCAGGTCTGGAGTTAGGGTTGACTGTAAGCCTGCAGTGTTAGTTCTAGGAGATGACCTGGGTTTGTGCAATAATAGGTGCTTTTAACCAATAAGCCATCATCTATGCCCTCTTACTAAACTTCTTTTTAAAAAGGTATACTTTTGGTCATATCTGGTTTATTTCTTTTATTATTTTAATTATAAATTAAAAATATAATGCAAATATGAAAATGTGGTTTTAGTAAATAATATGTAACATATAGAATATTAAGTGAACACTGTCTTTTACATCTAACTCATCATACATGTCTTCTGTGTCTAATCACCGTGGGTGGTTTAAGGATACTCCTAGCTAGGGGACTTAGTGTCCATTCCTTGTTTTCAGTGACCCATAACATTAGCTGCTGCAGTGCTCAGAATAGTTCAAAAACATTATAAACATTGCTCAAATTAACTGCATGCACTGAAGTCCCCTGACAGCTGATGGAGAGTGTAGCCTGCCTCCCAGGAGTTTCTAGTGGGGCCTGAGCAGCTGTGGATGTGAAGGGCTTAGCAGAGGTGGATATAAAGGTTTCTTGGTGCACCTGGAAAAACAAGCTTTGCCCCTTCAGCAGAAGAGGAACTGCCATGTGTCCTGGGGACTCTAGCTTAACATGCTCTCTCTCAGAGGCCTGTTACAAACTCACAGAAGTACTCCTCTCCAGCAATATGCTGACATGGAGACATGGTTTAAACTTTACCGAAGTAATGCAAATTTAAATTTCTTAAAGACAACCTTCCTTTAGACGCCCTAAAACCTGGGGGCATCCCTGCACCTATGAGAACTGTGACGCCATCCTTTGTGTTTCCTCCTCACAAACCAAAGAAGTGACACACTGAACAGTTGCAGTGCTGAGGACATTTTCTACATTGTTCTGTGGTCATTTAATCATATGCCTGTGGATGCCCCCTGTGGTGGTTTGAATATGCTTGGCCCAGGGAGTGGCACTATCAGGAAGTGTGGCTTTGTTGAAGGAAGTGCATCACCATGGGGGTGGGGTTTGCAGCTCTGCTCAGTGCAGAAAATCCAGTCTTCTCCTAGCAGCCTTCAGATCAAGATGTAAAACTCTCAGCTCCCCCCACACCATGCCTGAGTACATGCTTCATTCCTCCTGCCTTGCTGATGATGGAGTAAATCTCTGAACCACTGAACCTGTAAGCCAGCCCCAATTAAATGTTGTCCTTTATAAGAGTTCTTGGTCATGGCATTTCTTCACAAAACCCAAACTAAGACACCCTCATATATACATCCATCCCACAGACACACTCTATAATGAGTGATTTGTTGCAACATCTTAAAGTGTAAATGTTTAACAAATGTTTTACATATAAATGAAGATATGTTGTATTATTTCCCCCAAAAGTATTTTACAAGCACCCCTGTGACTGATCTGGGATTCAGCAAGACCTGTGTCTTTAGAAATTCACACAGGTGTAGGATTTGGGGGTTCTGGGGCCTCCTTGGCAGAGACCTTCCCCTCCCCATGTGCCCTGCTCCTCAGGGCTTCCTTTTGAAGAAGTTTTATACTTGGTATTAGAAGCCAGCATATGCCAGCAAGATTTTGCTGACAGGACCCTGCTGTAGCTCTCTCTTGTGAGGTGACGCCAGTGCCTGGCGAATACAGAAGTGGATGCTCACAGTCATCTATTGGATGGAACACAGGACCCCCAATGGATGAGCTAGAGAAAGTACCCAAGGAGCTGAAGGGATCTGCAACCCTATAGGAGGAACAACAATATGAATTATCCAGTACCCCCAGAGCTGTGTCTCTAGTTGTATATGTAGCAGAAGATGGCCTAGTTGGCTATCATTGGGAGGAGTGGCCCTTGGTCTTTCAAAGATTATATGCCCCAGTACAGGGGAGTGCTAGGGCCACGAAGCAGGAGTGGGTGGGTTGGGGAGCAGGGTATGGGGAGGGTATAGGGGACTTTCAGGATAACATTTGAAATGTAAATGAAGAATATCTAATAAAAAAAAGAAGCCAGCTCTGAATGCATCAAGCTTTATCACCCTTTCGGTTCTAAGCCTTATGGTTTCTGTGAAAGTCCAGTTTAATTTCTCACCAAATTTCATTTACTATACTCTTCCACTTAGCAGTGATGGTCCACAAGATATATATGTCTTACTTTAAAATTTCAGTTACTGTTATGGTTTGAGTCTGGAAGGTCACCTTGAGACTCATATGTTTCAACTTCAGGCTTGTTCTCAGTTCCTCGGTATTCAGAGGTAAGGCTGTAGGGAGAGAGTGGATGGAGAGGGCTCTGGCCTCAGTAGATTAATCAGTTTGTGAGCTCACTATCCATAGGCCTGTTGGGAAAGGAAGGAAACTCAGGAACTAAGGAGGTGGGTCTTAGCTGAAGAGTGGGTCCTGGAGGCCTGCCCTCAGAGACTGTATCTTGTCCTCAGATCCTCACTTTCAAAAGCTCTTTGCCTTTCTCCCTTTTTCCCAGCTGCCTTGGCCTCCGTCCTCCCAGCTGCCACAAGCTGAACATTTCTGTGTCATCATTATCACTCCACCATGAAGCTCTGCTTCACCACAGACCCTGAAGCAAGAGAGCCAAGTAACAGACCACAAACTGAAACTTTGAAAATCAGGAACCAAAACAAAGCTTTCTGCCCTTGTCTTTGTCTGGCATTTTGTCACAGCAACAGAAAGCTGACCACCACAGAAAATCTCATGTTCTTGACAGTTGAGTTTTATAGAGTACAGATTTTGATGATAAATCTAGGAATATGGTATTTTTCAGAACAGATAATTTAGCAAAATCATAAATACCACAAAATCTTTATCTTAAATTGCTGTTTATTTTTTATCTCTTTCAG
Seq C2 exon
GAAATTACGTCTAGTTGACATAGAAGAATTTCACAACCGCCAGGATTCATTAGAGCTGTCAGAATTTCAGAACATTGTCATTAAACACATGGAATCTGCCAAGGAGATGCTACTTAAAAC
VastDB Features
Vast-tools module Information
Secondary ID
-Dnahc7b:NM_001160386:10
Average complexity
IR-S
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:
ENSMUSP00000068738





     
      









    
Other Inclusion Isoforms:
NA
          









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



Associated events






Conservation


Human
(hg38)
chr2:196012907-196019169 
ALTERNATIVE
HsaINT0049952
(DNAH7)
Human
(hg19)
chr2:196877631-196883893 
LOW PSI
HsaINT0049952
(DNAH7)
Rat
(rn6)
chr9:59564802-59567910 
LOW PSI
RnoINT0007665
(AABR07067728.1)
Cow
(bosTau6)
chr2:84975988-84983511 
LOW PSI
BtaINT0050625
(DNAH7)
Chicken
(galGal4)
chr7:9269978-9271311 
ALTERNATIVE
GgaINT1011577
(DNAH7)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr9:25240831-25241731 
DreINT0058189
(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"