Special

MmuINT0050737 @ mm9

Intron Retention

Gene
ENSMUSG00000033987 | Dnahc17
Description
dynein, axonemal, heavy chain 17 [Source:MGI Symbol;Acc:MGI:1917176]
Coordinates
chr11:117964637-117965984:-
Coord C1 exon
chr11:117965730-117965984
Coord A exon
chr11:117964807-117965729
Coord C2 exon
chr11:117964637-117964806
Length
923 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
TCCACGGCTGTGTTGGGCAGATT
3' ss Score
5.14
Exon sequences
Seq C1 exon
TCTGACCTAGAGGATATCACAGACCTCATAGAGATGCGGGAGGAAGTGTCCAGCCTGGTCATTGGAGCCATGAAGGTGGCTGAGGAGTACCAGGACTCCTTTGAGAGGTACTCCTACCTTTGGGTGGATGACCTTCAAGAATTTATGAAGAACTTCCTCATCTTCGGGCACGCGCCCACCCCTGAGGAGCTGGACACCAAGACGGACGACACCATCCCCAAGACACCACCTACCCTGGCTCAGTTCCAGCAGCAG
Seq A exon
GTGTGTATGGTCCTGTTGTCCTCCTGTGTCACCTCCCACATCCTCGGGTAGACGACCCCCTCCCCACCCCCCACAGGCCTGATTTGAAAGTTGGGTGGCCTGATTGCTATGTAGGTTTTAAATTTGCTCCTGGTGAGGCCAGGAGAGAGAGCATGCCTTACCGCACTATGCCACACGGGGGAGCACCACTGTCACAGGAGGAATAGCATGCCTTACTACACCACGCCACATGGGGGGGAGCACCACTGTACCAGAGAGGCAGCCAGGGAGAGAGAAGAGGCCTCAGCAGGATCTACCAGGCTTGTAGTGTGAATGACTTCAGTTAGGTCAGGTGAGGGCACTATGCTGAGCTGGCTGGTGTCCCATCCTGTGGCAAGTAGGACAGAGGACTGATCCCTGAGAATAAGAGTCCCTAAGAGCCAGATAAGAGGTGGCTGGGAGCACTACACTCAGGCCAGCTCCAGGTGAGGTCTGCAGTCTAAGAATCGGCCTTCAGGGTCAGCAAGAGCTCAGGTGTCAGAATTGGGAATCTAGAAAGTGAAGCAATCCAGTCCTGAGGTTGGTCTTGGGCACAATGAGAAAGCCCTCTCCTCCCCCACACCAGTGAGAAGAAAGATGGGATGGCTCAAAGTCTGCAGGTGCTCCCATGAGTTAAGGGGTGCCCTTTGGGAGTCCCCTCCTGCTCCAGAAGCCTTACTGTAGTCACCCAATCCCATCCTCTTCTGTCTATCTGTCCCCTCCTAGAGGTGGGGCAGAAGGAGCTCTGAGGTGTTGGGACAGGGCAAACAGGTAGCAGTGGTCTCAGCCTCTCTTAAGCTGCACCCTGGGCCACCTGGCTGCCCTTCACAGCCAGACAGGAAGCGGCGATGGCTAGTGGGGGACACACAGCCATGGCTGATGGAATCCACGGCTGTGTTGGGCAG
Seq C2 exon
ATTGACTCGTATGAGAAGCTGTATGAGGAGGTGTCCAGCTGTGAGAACACCAAGGTCTTCCATGGCTGGCTGCAGTGTGACTGCCGCCCCTTCAAGCAGACCTTGCTCAACACCATCAAGCGCTGGAGTTTTCTGTTCAAGCGATACCTGAACAACCACGTCATCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033987-Dnahc17:NM_001167746:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.129 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000101915





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000047129, ENSMUSP00000081864, ENSMUSP00000120542
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr17:78530513-78532481 
HsaINT0049523
(DNAH17)
Human
(hg19)
chr17:76526595-76528563 
LOW PSI
HsaINT0049523
(DNAH17)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr19:54339354-54340570 
LOW PSI
BtaINT0050333
(DNAH17)
Chicken
(galGal4)
chr18:10076734-10076810 
LOW PSI
GgaINT1011494
(DNAH17)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr6:10439378-10439919 
DreINT0058362
(dnah9l)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GAAGGTGGCTGAGGAGTACCA

				
R: 
ACGTGGTTGTTCAGGTATCGC

				
Band lengths: 
345-1268

			

		

	





	
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"