Special

MmuALTA0012491-2/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000026790 | Odf2
Description
outer dense fiber of sperm tails 2 [Source:MGI Symbol;Acc:MGI:1098824]
Coordinates
chr2:29759496-29768160:+
Coord C1 exon
chr2:29759496-29759627
Coord A exon
chr2:29768086-29768088
Coord C2 exon
chr2:29768089-29768160
Length
3 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TTTTAATTCTAACCATGCTGAAG
3' ss Score
-2.68
Exon sequences
Seq C1 exon
GAGAAACAGATGACTTGCACCGACATCAACACCTTAACAAGGCAGAAGGAACTTCTCCTGCAGAAGCTGAGTACCTTTGAGGAGACCAATCGCACCCTCCGAGATCTGTTGAGGGAACAGCACTGCAAAGAG
Seq A exon
AAG
Seq C2 exon
GATTCCGAGAGACTAATGGAGCAACAAGGTACATTACTGAAGCGTCTGGCAGAGGCAGACTCAGAGAAAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026790-22-34,22-33-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
Protein isoform when splice site is used (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.117 A=NA C2=0.355
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0149614=V_ATPase_I=PD(19.9=86.1),PF108053=DUF2730=PD(33.8=69.4),PF123293=TMF_DNA_bd=PD(55.9=91.7)

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000109388





     
                   









    
Main Skipping Isoform:
ENSMUSP00000109394





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000028128, ENSMUSP00000049272, ENSMUSP00000109384, ENSMUSP00000109385, ENSMUSP00000109386, ENSMUSP00000109387, ENSMUSP00000109391, ENSMUSP00000109392, ENSMUSP00000109393, ENSMUSP00000109395, ENSMUSP00000109396
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr9:131243854-131243855 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr11:99062257-99062258 
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr17:5744131-5744132 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TGAGGGAACAGCACTGCAAAG

				
R: 
CGCTTTCTCTGAGTCTGCCTC

				
Band lengths: 
95-98

			

		

	





	
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






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"