Special

MmuINT0146277 @ mm9

Intron Retention

Gene
ENSMUSG00000029188 | Slc34a2
Description
solute carrier family 34 (sodium phosphate), member 2 [Source:MGI Symbol;Acc:MGI:1342284]
Coordinates
chr5:53452604-53455283:+
Coord C1 exon
chr5:53452604-53452715
Coord A exon
chr5:53452716-53455087
Coord C2 exon
chr5:53455088-53455283
Length
2372 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
GTGGCTTTCTCTTCCCATAGGGC
3' ss Score
11.25
Exon sequences
Seq C1 exon
TGCTGACGGTTCGGGCTGCCATCCCCATCATCATGGGCGCTAACATTGGAACCTCCATCACCAACACGATCGTGGCGCTTATGCAGGCAGGAGACAGAAATGAGTTCAGAAG
Seq A exon
GTAGGTGATTTGGGGCAAGCTTGGTGTCCACTGTCTATGTCCACAACGCCTTTAACAAGTCATGAAGGTGTGCTTGACTGCTAGCCTGGAAGGAGCCTCCAGTCCAACCAGTGTTGGGAATCCCAGATTAAAATCCACTTACGGATCTGTAAAGCTAGAATAATATCCAACAGCACCAGTAAATTATTGTAATGATTACACAGTCATGCAGGCAAGCGCTGTCAGGGTGCCTGAAAAGCACCAGCTAGACAAGCACAGCTGGGTGGTAGCGTTGAAGCAAGGCCAGTTGGGTGGGGCAGGCTTTGTTGTCTCACTTAGTCATAGATAATTATAACTTCATAAAACTCCCATTTTAGGCTAGCACTGCTACTAATACTATCTCTTCACCTGTAAGGCAGCACAGGCAAATATAGCTGATGACATGTGAGGTAGGAAAATAGGGGCAGTTGGAAATAGACACAGGGAAACCCTCTGTCTCGGCATTAGCATGGCGATGAAGGAAGTTTCCCAGCTTCTTTTCTAACCAGCCAGCCACAGACTCTACCCAGAGCTTATTAAAATGCAGAAGCAATTCCCAGCTTGTCAATGACGCCATCGCGGTGTGGTCAAGCCGCTGACATTATAGCAGGTTTTTGGGGGGAATGGTCATGTTTGTCGTGTCTGCTGGTGAATCAACAGGGGATGCTATCGCAGTGGTCCATCTACCTGAGCCACCTCTCATTTGGTCCCTGATGACATGTCTTGATGGACATGATAACACACATTAAGACGGGCACTCTCTAATTTGATCTCCCTGTGAAGCCAGACAGCCTTCTCTATCCCCCCCACCATCCATCCTGAAGCCAAAGGAGACAAAGTGATGTCATCGACTGGCCCCAGCCAGGATTCCAGTTAGGTTTCGATTCTGGAAAATCTTGGCTCATCTCATGATTATTTACACTGATTGCTTCCTTGTAGCCTATGAAAAAGAAGCCTAAGTAAGACCTAATGAGTTGCCTACATGTTGGGATGTAACTGACTTAGTTCACTCTGCTCCCCAAGTGTATAAATTTCAGTATGGCTTGCATAACCGATATTGGTTCCATGTGGCATCCTTCTTGGAGGTTTAGATTATTGCCTTAGATAGCTGCAGTAATTACTGTATCAACTGTTTATAGAGCTCCTAGACATTTTACCGAACACCAGGAAATCTGTGAATCATTTTCTACTTCACCAGCAGTGTATGAAAGTGTCTTTGGTTGCCTTCAGGAAGAATGAGACTAGCTAATACCATAGACCAAATATTAGAACTTGAACGGTTCCTTTCTAAATTATTTCCCCATCTGCTTATTAAGTGCTTCTCTGTAGCCATATACCAAGTATACCTTGTGGTAGGTATTTTCACACTTTCTTAATTTGAAAGATACATATATATATATATATATATATATATATATATATATATTTTTGTCTCAGAATTTTGAGAATTGAAGGTTAAGATTTCAGGGGCTGGAGAAATGGCTCAATTGTCTTTCAGAGGACCTGGTTTTAGTCCCGCCACCCATGTGCCCATATGGTGGCCCACATGCTTGTAGTTCCAATTTCTAGGTTTCTGATGAGACCCGTACTGGTGCAATGCACATATACTAAACATACACAATTAATTAATCCCAACATTTGGGAGGCAGAAGCAGGTGGATCTCTTTGAGTTCAAGTCCAGGACAGCCAGAGCTTTACATAGAGAAACTCTGTCTTGAAACCCCCTTCCCATACCCAAAAAAGAATCCAGTTGGTAAGAAGGTTCTGATGGTCTGGCCCACTACTCTCTCTCTCTACCTTTCAAAGGACAGGTTGCCTTCCAAGCAATTTAAGTGGTCTAGGCATGGTTGAAGAGGTTTCTCAGTGGTTAAGTCTTTGTTGGTGGTCTTGCAGATGGCCTATGTGACCCATAAAGTGACCCTCAACTATATAATCAGTTCTGGGTGTATGGTACACATACAAACATGTAGGAAAACCATTCATAATTCTTAATCTTTATTGATTTTTAAAAAATTTTATTTTATTATTGTGTTTGCCTCTAATGCATGTATGTATGTACTATCTGCATACTTGGAGAAACTGGAGTTGTGGGTTTTGGGACTGAAACCCAGGTTCTCTAGAAGAACAGCCAGTGCTCTTAATGGTTCTCTCCAGCCTTAAAAATCTGTACAAGAAGGGTTGGGGTGGGGGGAGTCTTGATGCAATTCTGCTAAAGAGTGGTTCTTAGGATTCCACTCCTAAGATACTATACTGGTCAGAAAAGTCTTCCTAGACCAACCACCTGTGTGTACTTAGGTGGATGGCTTGCACCTCCCTCAATATAATATGGCTCTGGTGGCTTTCTCTTCCCATAG
Seq C2 exon
GGCATTTGCAGGAGCCACTGTTCATGACTTCTTCAACTGGCTCTCTGTGTTCGTGCTCTTGCCTCTGGAGGCTGCCACCCATTACCTGGAGATCCTGACCAACCTTGTGTTAGAAACCTTCAAGTTCCAGAATGGAGAAGATGCCCCAGACATTCTGAAAGTCATCACAGACCCCTTCACAAAGCTCATCATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029188-Slc34a2:NM_011402:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0269010=Na_Pi_cotrans=FE(25.7=100)

							
A:
NA

							
C2:
PF0269010=Na_Pi_cotrans=PD(28.5=62.1)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000092380





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000130692, ENSMUSP00000132328
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr4:25667992-25669646 
LOW PSI
HsaINT0152515
(SLC34A2)
Human
(hg19)
chr4:25669614-25671268 
LOW PSI
HsaINT0152515
(SLC34A2)
Rat
(rn6)
chr14:60263432-60265715 
LOW PSI
RnoINT0137617
(Slc34a2)
Cow
(bosTau6)
chr6:46739892-46742082 
LOW PSI
BtaINT0135298
(SLC34A2)
Chicken
(galGal4)
chr4:73046025-73047575 
ALTERNATIVE
GgaINT0072510
(SLC34A2)
Chicken
(galGal3)
chr4:75892214-75893764 
LOW PSI
GgaINT0072510
(Q6TQF9_CHICK)
Zebrafish
(danRer10)
chr23:1071924-1072037 
LOW PSI
DreINT0150678
(slc34a2b)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
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
  • 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"