Special

MmuEX0043440 @ mm9

Exon Skipping

Gene
ENSMUSG00000024485 | Slc4a9
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 9 [Source:MGI Symbol;Acc:MGI:2443384]
Coordinates
chr18:36691088-36691886:+
Coord C1 exon
chr18:36691088-36691180
Coord A exon
chr18:36691332-36691465
Coord C2 exon
chr18:36691624-36691886
Length
134 bp
Sequences
Splice sites
3' ss Seq
AGAGATCTGTCCACTTCCAGGGA
3' ss Score
6.25
5' ss Seq
CAGGTAGAC
5' ss Score
6.89
Exon sequences
Seq C1 exon
TGTTTCTCAGCTGTGTTCTACATTTACCTGGCCACAGTCACAAACGCCATCACTTTTGGGGGTCTTCTGGGAGATGCCACTGAAGGTGCCCAG
Seq A exon
GGAGTGCTGGAGAGTTTCCTGGGCACAGCGGTGGCTGGAGCTGCCTTCTGCCTGATGGCAGGCCAGCCCCTCACTATCCTTAGCAGCACAGGGCCAGTGCTGGTATTTGAGCGCCTACTCTTCTCTTTTAGCAG
Seq C2 exon
AGATTACAGCCTGGATTATCTGCCCTTCCGCCTATGGGTCGGCATCTGGGTGACCGCATTTTGCCTGGCACTGGTGGCTACGGAGGCCAGCTTGCTGGTGCGCTACTTCACCAGATTCACAGAGGAAGGATTCTGTGCCCTCATCAGCCTCATCTTCATCTATGATGCCATGGGGAAGATGCTGAATTTGATCCGTGCCTATCCAATCCAAAGGCCAGGGTCTTCTGCCTATGGTTGCTTCTGTCAATACCCAGGCACAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024485_MULTIEX1-9/16=8-10
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence exclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0095516=HCO3_cotransp=PU(4.3=56.2)

							
A:
PF0095516=HCO3_cotransp=FE(9.5=100)

							
C2:
PF0095516=HCO3_cotransp=FE(20.9=100)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000111358





     
                   









    
Main Skipping Isoform:
ENSMUSP00000073910





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000095221
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr5:140364054-140364187 
HsaEX6100189
(SLC4A9)
Human
(hg19)
chr5:139743639-139743772 
HsaEX6100189
(SLC4A9)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr7:53246796-53246929 
HIGH PSI
BtaEX6040807
(SLC4A9)
Chicken
(galGal4)
chr13:979464-979597 
HIGH PSI
GgaEX6010920
(SLC4A9)
Chicken
(galGal3)
chr13:1431763-1431896 
HIGH PSI
GgaEX6010920
(SLC4A9)
Zebrafish
(danRer10)
chr5:45186111-45186244 
HIGH PSI
DreEX0073058
(slc4a4a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ACTTTTGGGGGTCTTCTGGGA

				
R: 
AGGCACGGATCAAATTCAGCA

				
Band lengths: 
242-376

			

		

	





	
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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