Special

MmuALTD0009757-2/3 @ mm9

Alternative 5'ss

Gene
ENSMUSG00000026790 | Odf2
Description
outer dense fiber of sperm tails 2 [Source:MGI Symbol;Acc:MGI:1098824]
Coordinates
chr2:29779059-29781622:+
Coord C1 exon
chr2:29779059-29779159
Coord A exon
chr2:29779160-29779316
Coord C2 exon
chr2:29781460-29781622
Length
157 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGC
5' ss Score
8.15
3' ss Seq
AATGGAGTGCTCTCACCTAGGAA
3' ss Score
3.71
Exon sequences
Seq C1 exon
ATCGAACATCAGGGGGACAAGCTGGAGATGGCGAGAGAGAAACATCAGGCTTCCCAGAAGGAAAATAAACAGCTGAGTCAGAAGGTGGATGAACTTGAGAG
Seq A exon
GTTAGAGGCACTTGGTCCCATGTCTGTCCTCTTCCTAGGACCTGAGACTTTCTGCCACTTAGCTGCTTTGTGCTTAGTGTGCTGAAGTATTGGAAGGACTCAAGGTCCTGGAAGGTACTAGGCAGAACTCAGAGGAAGAGCTGCTTGTGTTTCAGTG
Seq C2 exon
GAAACTGGAGGCTACCAGCGCCCAGAATGTCGAGTTCCTACAGGTGATTGCCAAGAGGGAGGAGGCAATCCACCAGGCTCAGCTGCGGTTGGAGGAGAAAACGAGGGAGTGTGGGTCATTGGCGAGGCAGTTGGAGAGTGCCATTGAAGATGCCAGGCGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026790-39-46,40-46,41-46-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption when splice site is used (sequence inclusion)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.882 A=NA C2=0.182
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF103944=Hat1_N=FE(17.7=100)

							
A:
NA

							
C2:
PF103944=Hat1_N=FE(29.0=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000109394





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000049272, ENSMUSP00000109385, ENSMUSP00000109386, ENSMUSP00000109387, ENSMUSP00000109388, ENSMUSP00000109388f6171A, ENSMUSP00000109395
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:128496041-128496141 
ALTERNATIVE
HsaALTD0004486-2/3
(ODF2)
Human
(hg19)
chr9:131258320-131258576 
ALTERNATIVE
HsaALTD0004486-2/2
(ODF2)
Rat
(rn6)
chr3:8484887-8484987 
HIGH PSI
RnoALTD0020899-2/2
(Odf2)
Cow
(bosTau6)
chr11:99071739-99071997 
LOW PSI
BtaALTD0015290-2/2
(ODF2)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GAACATCAGGGGGACAAGCTG

				
R: 
TCAATGGCACTCTCCAACTGC

				
Band lengths: 
245-402

			

		

	





	
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
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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