Special

MmuALTD0000471-1/2 @ mm9

Alternative 5'ss

Gene
ENSMUSG00000051278 | 4930422G04Rik
Description
RIKEN cDNA 4930422G04 gene [Source:MGI Symbol;Acc:MGI:1918893]
Coordinates
chr3:127263814-127266136:+
Coord C1 exon
chr3:127263814-127263956
Coord A exon
NA
Coord C2 exon
chr3:127264393-127266136
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTCT
5' ss Score
1.07
3' ss Seq
AATTGTTTTAATTTGTTTAGGGT
3' ss Score
6.97
Exon sequences
Seq C1 exon
GTGAAACCTGGAGATGACTTGGAAAGTGAGCGGTATTTAATCACAGTTGAGGAGGCTAAGGCTGTTGGAAGCAGAGCTGTTGAACCGGATGGCTCTAGAGAAGCACTGGAGTCAGGCTCAAGGACGCTTGTATCCTCCAGCAG
Seq A exon
NA
Seq C2 exon
GGTTTTCAAAGACCATATAAGATGCCAAAGAAAGTGACTATTACTGAGAACAGTGAACCTGCTGCCTCACTTGGTGATGAGAACCCTGGCCCGCCTGGCCCGAGACTTCTTCCCACATTCTCCAGCACACTTCCTTTGTTTCCCACTGTTGGTCAGAAAGATTTAACTCCTGTGTCAACGGATAATCAGAGTCCCATCACATTCAGCAACAGAGAGAGAAGCGACACACCTTTATCACTTCCTTCTTCATACTTCAAGATTAACACAAACACACTAGGTAAAGAGGACAAGCTTTGCTTTCCTGTCAGTTCTGAAACCAAACATTCAGACTCTTTACTGGCCAGTGAACCCATGAGAAGAAATGGTTTAGACTCTCACTGTCCTGGAGTTTCACAAAACGTCAGAAGCAAAGCCCAGATATTAGCTCTTCTGAAGTCCAGCTCAACTAACAGGAAGGATCTGCATGGTGAGATTCCAGGACACTTTCCTAAGATAGAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051278-8-4,9-4-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption when splice site is used (sequence exclusion)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.387 A=NA C2=0.641
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF103824=DUF2439=PD(33.8=43.5)

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000044432





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000044432f4769A, ENSMUSP00000044432f4770A
  



Associated events







Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr4:113541199-113541200 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr6:14181334-14181335 
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr4:58666938-58666938 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CCGGATGGCTCTAGAGAAGCA

				
R: 
CTCATCACCAAGTGAGGCAGC

				
Band lengths: 
140-183

			

		

	





	
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"