Special

MmuINT0077076 @ mm9

Intron Retention

Gene
ENSMUSG00000020721 | Helz
Description
helicase with zinc finger domain [Source:MGI Symbol;Acc:MGI:1925705]
Coordinates
chr11:107493486-107496412:+
Coord C1 exon
chr11:107493486-107493664
Coord A exon
chr11:107493665-107496293
Coord C2 exon
chr11:107496294-107496412
Length
2629 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGC
5' ss Score
6.73
3' ss Seq
TCCTGTGTTGTACCTTCTAGGGT
3' ss Score
10.12
Exon sequences
Seq C1 exon
GGTGTATTTCCGGAATCGCTGGGTGAAGACTGTCCACCCAGTCGTGCATCAGTACTGCTTGATCTCGAGCACACAGTCCACCTTTCAGATGCCCCAGAAGGAAGATATTCTTAAACATCGAGTGGTGGTGGTCACACTGAGCACTTCCCAGTACCTCTGCCAGCTGGACCTGGAACCTG
Seq A exon
GTATGCCCACTTGCCACAGGTGGCTGTCTCCCAGTGACAGGTTCCTGTGGGCCACATCTGGCCAGGTCTCTTTCATCGGAATGCAGCTTCCTGTGTCCTTTTATTAACTGGTTTCTTGTCTGCGGCTGCTTTTATGATGCAGGATCTTCTGCAGGGACAGAAGCTCTTTGGCCCTTGACTGAAAAACATTTGCCATTTCACCTGTTCTCTAGTTGGTATCTGTTCACTAGTGATCAGTTCAAATTTGGACAGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGATTTTGTTGAGGTTTTTGCTAAGTTGCTTTTGAATCTTGTTTTTTTTTTTAAAGATTTATTTATTACATATAAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGCGTCAGATCTCGTTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCTGGACCTTCAGAAGAGCAGTCGGATGCTCTTACCCACTGAGCCATCTCACCAGCCCCCGCTTTTGAATCTTGTAATGTAGAAATAGCAATTATGGCACTTGATTAAGGTTCCTTATTTTTAAGGATTTATTTGTGTGTGTCTGTCTGTCTATGTGTCTTCATGCACACTTGAGCTAGAATGTGCCTGTCTACATGCACAAGTGAGTGTGCAAGTGTGTGTGTGGGGCGCGTGTGCATATGCCTGTGTCTGTGTGTCTCCATGCACAGATGACTCCATGCACACACACATGTGTGTGCCTGTGGAAGCCAGAGAGCCCTTTAGGTGCCTCTCCTGTCACTCTCTGACTATTCCTTTGAGGCAGAATCTTCCGTGTATCTGAGGTCATATTTTCTTGGCTAGGCTGGAAGCCAGTGAGCCCTAGTGATTTCCCTGGGCCTACAGGTATAGGTGGGATGCCCTGCTCATTGTGTGGGTGCTGCAACATGCTGTTAACAGAACTTAACATCATGCAGCAAGCACTCTTACATGCTAGGACTATGTAAAAATCACTCTTCATTTATTTAAACTTTTTATTTTTGTGGTTTTGAGATAGGGTCTTACTTTATAATTATAACTTATGCTTGCATTGAGCTTGCTATTAGCCCAGACTGGCCTTAAGCTCACACTCTTCCGAGTGCTGGGCTTCCCAGCGTGTGAGCCAGCATGCCCAGCTCAGTCTGATTTATATGAGCACACAGATGTAAGCTGGTGAGTTGAGTATGGTAGAACCTGAGCATGAGAAGACCGTCGAATGTCTTTAGCATGCTCTTCAGCAGGGCTGGCCCTGCTCTTCCTGTAATTGCCAACTGCTCATGACTTTCCCATCTCCTGTTGGAATTGCCTTTAAAGCCACTGACACGCTCTACTGCAGGTCTGAGTCCTGGAAGGCACAGGCCAGTCCCTGGCACCTGGCCCAGGGCATAGACACCTGGAGCACCCTCCCCACCCCCACCCAATTTAAGATAAAAGGTTACATTTATCTTAAATGAAGGTATTGGCAGCTAACTTTTTCTTTTCCTTATTGAGGCCAGGTTTAATGGTAAAAAGACTTTGGAATTGATAAGGGTGGTGACTAGCCTGGGTACAAAGGAAGGCCCCCATTGGATGAGACTTTCTCTGCCTGCCTGTAGCTCTTGGTTGGCCGTGAGGCAATCCAAGGATGTGTTTCAGAGGTCAGAGCACAGTGGCAGCATCTTTGTAAATGGGGCTCTGTGATGCCGAGCTTGGGAATGCTTACTCCCCCCTCACTAGATGCTGATACTGGGCAGTGTGTGCAGACAGTTGGCTGCTGCAGCTCTGCTTGTGAGAGGGGAGTGGCTGGGAAGGGCTGGGATGGAGCCGTGGTCACTGCTGTCCAGGTGCTGTTAGGTTTTATTCCAGTCCATTCTCACTCCAACACTATGGTGGTTATCTTACAGTCAACAGAACTAAGACGCAAACTAAGTCATTTTAATTAATTAGTTAATTAATTAATTGCCCTTTCTTTCCTTCCATTTGCTTTCTCATCTTATACTTTTTTTCTTTTTTGTTTTTTATAGACAAGGTTTCTCTATATAGCTCTGGCTGTTCCCAAAGTTATTCTGTAAACCAGGCTGGCCTCGAACTCAGATCTGCCTGCCTCTGCCTCTGAAGTGCTGGGATAAAAACCAGGCAGTTGCCTTTAGAAAAAAAAGGTGCCTGCTTAAGTAGTAGGCAACAGTTTGATGATTTATGCGGTTCCTGAGAAAATGTTAACAAAAGAAAGCATACTTAATCGTTTTAACCTTTTCTTTTAAAAGCATTAAGAACATTTATTTTTCATGTGTGCACGTGTGTGCACGTAAGTGAAGTTGCCCACAGCGTCCAGAAGTTGTCACATCTCTGGAGTTCAAAGTGGCTGTGCACTATCTACCATGTACGCTGGGGAACAAACTCAGTCCTCTACAAAGAGCAGTACATTGGCTTTTAACCTCTGGGTCATCTCTCCAGCCCCAGTCTTTAAAAAAAAAATCCTGTTTTAAGCTGATTGTCTGGATTGAGGTTGGCCTTAGACTATTCATGACTTGGGTTAATGAAACAAACTTTACCTAGCAGCGCAGAGAGCAGTTGCTCTGTGACAGTGTTCTCCTGTGTTGTACCTTCTAG
Seq C2 exon
GGTTCTTCACGCACGTTCTCTTAGATGAAGCTGCCCAGGCCATGGAGTGTGAGACCATTATGCCTCTAGCCTTAGCTACTAAAAACACACGGATTGTTTTGGCTGGTGATCACATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020721-Helz:NM_198298:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF130861=AAA_11=PD(48.0=59.0),PF130861=AAA_11=PU(43.5=60.7)

							
A:
NA

							
C2:
PF130861=AAA_11=FE(20.1=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000074533f826A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000074533, ENSMUSP00000097878, ENSMUSP00000102357, ENSMUSP00000117498
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr17:67149986-67151045 
ALTERNATIVE
HsaINT0075314
(HELZ)
Human
(hg19)
chr17:65146102-65147161 
ALTERNATIVE
HsaINT0075314
(HELZ)
Rat
(rn6)
chr10:95853531-95855972 
ALTERNATIVE
RnoINT0070069
(Helz)
Cow
(bosTau6)
chr19:63823934-63827089 
LOW PSI
BtaINT0071375
(HELZ)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr18:7203877-7204295 
LOW PSI
GgaINT0127313
(HELZ)
Zebrafish
(danRer10)
No conservation detected
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
  • Pre-implantation embryo development
  • 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"