Special

MmuALTA0008747-1/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000056648 | Hoxb8
Description
homeobox B8 [Source:MGI Symbol;Acc:MGI:96189]
Coordinates
chr11:96143219-96145580:+
Coord C1 exon
chr11:96143219-96144700
Coord A exon
NA
Coord C2 exon
chr11:96145480-96145580
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTTTCCCCCATTCCCAGCAGCCG
3' ss Score
6.88
Exon sequences
Seq C1 exon
CCCCTCCCCACCCCCTCCCCAACAGCCCCCAACTACAGCCTGCGCCGCCGCCGCCGCCGCCTCAAAATTCAATAAAATGAGCTCTTATTTCGTCAACTCACTGTTCTCCAAATACAAAACCGGGGAGTCCCTGCGCCCCAATTATTATGACTGCGGCTTCGCCCAGGACCTGGGCGGCCGACCCACCGTGGTGTACGGTCCCAGCAGCGGCGGCAGCTTCCAGCACCCTTCGCAAATCCAGGAGTTCTACCACGGGCCATCGTCGCTGTCCACAGCTCCCTACCAGCAGAACCCGTGCGCCGTGGCGTGCCACGGCGACCCCGGCAACTTCTACGGCTACGACCCTCTGCAGCGCCAGAGCCTGTTCGGTGCGCAGGATCCAGACCTGGTGCAGTACGCAGACTGCAAGCTCGCGGCAGCCAGCGGCCTGGGCGAGGAGGCCGAGGGGTCTGAGCAGAGCCCGTCGCCCACACAGCTCTTTCCCTGGATGCGCCCTCAAG
Seq A exon
NA
Seq C2 exon
CCGCCGGACGCAGGCGAGGCCGCCAGACCTACAGTCGCTACCAGACCCTGGAGCTGGAGAAGGAGTTCCTATTTAATCCCTATCTGACTCGCAAGCGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000056648-2-4,2-3-1/2
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=0.259 A=NA C2=0.433
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF0004624=Homeobox=WD(100=90.2)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000120351





     
                   









    
Main Skipping Isoform:
ENSMUSP00000052496





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000040121, ENSMUSP00000128136
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr17:48613206-48613506 
ALTERNATIVE
HsaALTA1020262-1/2
(HOXB8)
Human
(hg19)
chr17:46690869-46690870 
Rat
(rn6)
chr10:84132699-84132700 
Cow
(bosTau6)
chr19:38516036-38516037 
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr27:3580228-3580343 
ALTERNATIVE
GgaALTA0008682-1/2
(F1P4P5_CHICK)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CACAGCTCTTTCCCTGGATGC

				
R: 
AGGAACTCCTTCTCCAGCTCC

				
Band lengths: 
100-103

			

		

	





	
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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