Special

MmuALTA0018611-2/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000033327 | Tnxb
Description
tenascin XB [Source:MGI Symbol;Acc:MGI:1932137]
Coordinates
chr17:34827087-34829533:+
Coord C1 exon
chr17:34827087-34827377
Coord A exon
chr17:34829219-34829233
Coord C2 exon
chr17:34829234-34829533
Length
15 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GATCTCTCTTCTCATCCTAGACT
3' ss Score
7.87
Exon sequences
Seq C1 exon
ACAAACAACCAGAAGAAAAGCCCCCCCTTGAGCCACGCCTGGAGGAGTTGACAGTGACTGGTGTAACCCCCAATTCTGTGAGCCTCTCGTGGATAGTTCCTGAGGGACAGTTTGACTCCTTCGTGGTCCAGTACCAGGACAGGGATGGGCAGCCCCGGGAGGTACCACTGACAGCAGAACAGCGTGAGGTCACTGTCCTTGACTTGGACCCTGCAAGAATATACAAAATGAACTTCTACGGGCTACACGGTAGACGACGTGTGGGCCCCCTCTCCGTGTCAGCAATGACAG
Seq A exon
ACTCTCTCTCACCAG
Seq C2 exon
CACCAGCTCCAGCCACCGAGGCCTCCAAGCTGCTCCCAGAACCACGACTGGGGGAACTAACAGTGACAGATGTGACCCCGGACTCAGTGGGCCTCCTGTGGACTGTCCCTGAGGGTGAATTCGACTCCTTCACGGTCCAGTACAAGGACAGGGATGGCCAGCCCCACGTGGTGTCTGTGGCAGCAGACCTACGGGAGGTCACCATCCCAGGCCTGGAGCCCTCTCGCAAGTACAAGTTCCTGCTCTTTGGGGTCCAAGATGGGAAAAGACGCAGCCAGGTCTCTGTAGAGGCGAAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033327-13-12,13-11-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
Protein isoform when splice site is used (No Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.480 A=NA C2=0.327
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0004116=fn3=WD(100=82.7)

							
A:
NA

							
C2:
PF0004116=fn3=WD(100=78.2)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000084661





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000062808, ENSMUSP00000127487
  



Associated events







Conservation


Human
(hg38)
chr6:32072299-32072300 
HIGH PSI
HsaALTA0008868-2/2
(TNXB)
Human
(hg19)
chr6:32039767-32040075 
HIGH PSI
HsaALTA0008868-2/2
(TNXB)
Rat
(rn6)
chr20:4456596-4456597 
Cow
(bosTau6)
chr23:27108471-27108770 
HIGH PSI
BtaALTA0030912-1/2
(TNXB)
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: 
TCTACGGGCTACACGGTAGAC

				
R: 
TTAGTTCCCCCAGTCGTGGTT

				
Band lengths: 
117-132

			

		

	





	
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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