Special

MmuALTA0004384-2/2 @ mm10

Alternative 3'ss

Gene
ENSMUSG00000034903 | Cobll1
Description
Cobl-like 1 [Source:MGI Symbol;Acc:MGI:2442894]
Coordinates
chr2:65151030-65238626:-
Coord C1 exon
chr2:65238363-65238626
Coord A exon
chr2:65151165-65151167
Coord C2 exon
chr2:65151030-65151164
Length
3 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
GAATTTTCTTCTTCTCGTAGCAG
3' ss Score
5.89
Exon sequences
Seq C1 exon
CGCGGCGCCCTCGGGCAGGGACCGACCGGCAGGTGGAAGCGCCCCGGGGAGGCGGGGCCGCCCCTGGCTGCCGTGGGTCGAGGCGGGCTCTTGGCCCGGCCGCTCCCGCCCTGACCCGCCGGCCTCTCCCACCCTAGCAGTGACGCGCCGCCTCCGAGCCCGAGCCCGCGCCGCGGCCAGCAGCGCGATGGACCGCAGCGTCCCGGATCCCCTACCCCGCAGCGCGCCCCGCACCCCCGCCATGCAGCCCGCGGGCTCCGCAGG
Seq A exon
CAG
Seq C2 exon
GAAAACAAAAGGGAAGGCGCCTCTTCCTCCGGCCGAGACGAAGGGCACTGATGTCTCTTCTGCTGAAGACCCTGTAGAATCTACTGCTGTCGTCACAGAGCAACAAGACAATATGATAGATAAAGATATTGAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034903-5-15,5-14-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
Protein isoform when splice site is used (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=1.000 A=NA C2=0.598
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF0219610=RBD=PU(24.7=28.6)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000108048





     
                   









    
Main Skipping Isoform:
ENSMUSP00000108049





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000088412, ENSMUSP00000099787, ENSMUSP00000108050, ENSMUSP00000115065, ENSMUSP00000116196
          









    
Other Skipping Isoforms:
ENSMUSP00000114447
  



Associated events







Other assemblies


mm9




Conservation


Human
(hg38)
chr2:164743876-164743877 
Human
(hg19)
chr2:165600386-165600387 
Rat
(rn6)
chr3:51211565-51211566 
Cow
(bosTau6)
chr2:31631291-31631292 
Chicken
(galGal4)
chr7:19585826-19585827 
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CGTCCCGGATCCCCTACC

				
R: 
GAAGAGGCGCCTTCCCTTTTG

				
Band lengths: 
92-95

			

		

	





	
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
  • Ribosome-engaged transcriptomes of neuronal types
  • 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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