Special

MmuALTA1004538-1/2 @ mm10

Alternative 3'ss

Gene
ENSMUSG00000015829 | Tnr
Description
tenascin R [Source:MGI Symbol;Acc:MGI:99516]
Coordinates
chr1:159851957-159858362:+
Coord C1 exon
chr1:159851957-159852433
Coord A exon
NA
Coord C2 exon
chr1:159858281-159858362
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
AATATGTGATCTCTTACCAGCCG
3' ss Score
5.42
Exon sequences
Seq C1 exon
GACAACTGGACTATGTCCCTCACTGCAGCGGCCATGGCAACTTTAGCTTCGAGTCCTGTGGCTGCATCTGCAATGAAGGCTGGTTTGGCAAGAACTGCTCAGAGCCCTACTGCCCACTGGGCTGCTCCAGTCGGGGTGTGTGTGTCGATGGCCAGTGCATTTGTGACAGTGAATACAGCGGAGATGACTGTTCAGAGCTCCGGTGCCCAACAGACTGCAGTTCCCGAGGGCTCTGTGTGGATGGGGAATGTGTCTGTGAAGAGCCCTACACAGGCGAGGACTGCAGGGAGCTGCGCTGCCCTGGGGACTGTTCAGGGAAGGGGCAATGTGCCAATGGTACCTGCCTGTGCCAAGAGGGCTATGCTGGTGAGGACTGCAGCCAGCGACGGTGTCTGAATGCCTGCAGTGGGCGAGGTCACTGCCAGGAGGGGCTCTGCATCTGTGAGGAAGGCTACCAGGGCCCTGACTGCTCAGCAG
Seq A exon
NA
Seq C2 exon
CCGACGGCCCTGGGGGGCCTTCAGCTCCAGCAGCGGGTGCCTGGAGATTGGAGTGGTGTCACCATCATGGAGCTGGAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015829-14-10,14-9-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption when splice site is used (sequence exclusion)





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF079748=EGF_2=WD(100=16.9),PF079748=EGF_2=WD(100=16.9),PF079748=EGF_2=WD(100=16.9),PF079748=EGF_2=WD(100=18.1)

							
A:
NA

							
C2:
PF0004116=fn3=WD(100=87.6)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000107298





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000141509, ENSMUSP00000141553
  



Associated events






Conservation


Human
(hg38)
chr1:175396554-175396703 
LOW PSI
HsaALTA1018660-1/2
(TNR)
Human
(hg19)
chr1:175365840-175365841 
Rat
(rn6)
chr13:77610981-77611062 
ALTERNATIVE
RnoALTA0041618-1/2
(Tnr)
Cow
(bosTau6)
chr16:58096878-58097037 
ALTERNATIVE
BtaALTA0030873-1/2
(TNR)
Chicken
(galGal4)
chr8:7014381-7014382 
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr2:35424584-35424585 
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CTGTTCAGGGAAGGGGCAATG

				
R: 
CCAGCTCCATGATGGTGACAC

				
Band lengths: 
246-350

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • 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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