Special

MmuINT0147260 @ mm9

Intron Retention

Gene
ENSMUSG00000023032 | Slc4a8
Description
solute carrier family 4 (anion exchanger), member 8 [Source:MGI Symbol;Acc:MGI:1928745]
Coordinates
chr15:100633666-100636842:+
Coord C1 exon
chr15:100633666-100633779
Coord A exon
chr15:100633780-100636680
Coord C2 exon
chr15:100636681-100636842
Length
2901 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
ACGCTTGTTTTCTCTCCTAGCCA
3' ss Score
7.81
Exon sequences
Seq C1 exon
GTCCGCTCCATGGTGAGTGACTTCGCCGTGTTCCTCACCATCTTCACCATGGTGGTCCTTGACTTTCTGATTGGCGTCCCGTCGCCAAAGCTTCAGGTTCCCAATGTGTTCAAG
Seq A exon
GTGAGTGGACCTCGGTGATCTTCAAGCCTGAGGGTACACTGATCTCAAGTTGCTCTCGGAGGCTCAGAAGGAAAGGGTAACATTTGTTGCCATGAAGAGTTTTCTGCTAAGCTTTAGGAGAACAGAAAGTGCCTACTGACTTACAGATGCGGTGGCGTGGAGAGGCGGTCCGTGGAGGGAGTCTGGCAGACTGGCAAGCCGTAGAGATGATCTCAGACCTCGGAAGGTCGGGTTTGGAGTCGAGGGCTCTCCTGAACCATCAGGAGATTTCTTCAGCACTATTTTGTGTTTGCCTGTCAAATTCTTGATAATCCATAGTAGTTACAAATCTTACATACAAACTGACATACTGTCCAACCCCTGGGATCCCAAATGTAATTCAGGGCAAGAGTTACAAGTGGAGGGGACCGACCGGAAAGCTGAGCTCAGCTCCACAGACCCTCACTGGGTGGAGAGGCCGGGGAGCCCACACATGCTCAGCCACCTCAGAGGACTCTGGAATAGGACAGTGTACTGACATTTTTGACAGTTTTGGAGGTTTTGGTTTGGTTTAGTTTTTTTGTTTTTGTTTTGTTTTTGTTTTTGTTTTGTTTTGTTTTGTTTGTTTGTTTTTGGTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGAAACTCACTCTGTAGCCTAGGCTGGCCTCGAACTCGTGATCCTCCTGCCTCTGCCTCCTTCAGCAAATCCTACCGGCATGGTTTCTTTAAAAAACACAGAAACAATGATAAGAATGTGCTTTGGGGGGCTGTGGCTGCTGCAGCAGCCGACATGATTTACCTCGTGCTCTGGCAGAAGAGCGGTTTTGTCAGCTGCATAACAGTTTGTGCTGTTATGTGATGTTTTAATTCTGGGAACTTCTCAAATCGTACATAGTTTCGAGGGCCCCGAGAGGCCAGTGGGTGGTTGTTGGTCGTTTAGGGAGGTTGGTGAGGTTTGTTAGTAGCTGTGGTCAAACAAGAAACAAAAGGAAAGGAATGAGGCCCAGGGCCTCCCCCGCTGCCTTGCTCCCCTCTGTCCTTGCTCCTCCCCTATCTCGTGTTAGAGGGTGAAACTGGGGGGGGCAAAGGGTGGGAAGAGGAAGAACCCACAAAGCAACAAGGACCAGCTACAGGAAGGGCTCAGGGCGGCAGGAAGACAAAGTGCGAGCCTTTAGACCCAACACACAGGAGGCAGAGGCAGGCAGATCTTGGTGAATCTGATGCCAGCCTGGTCTATGTGGCAGGTTCCTGGCCAGCCACGGCTACTCCATGGTGAGGTATTTTGCTATCTTTTTCACTATCTTCACAGTGATTACATGGACAGACTACTGGTATTATTTTTTCTATTTTGTCTGTTTAATTCTGTTAAACTTATTAAAATGCAAAATAGGTTAAACGCCCTTCATCTATATAACACAGCTCAGAGCCCCGGGTCTTAGCCCCGTGTGAATAAAAAACATTCAGTTCTCTTCCTGGTACCTAGCTGACTGCAGGACAAAGGGGTTTCTGTATAAAAATAGGAGATTTGGAGCATCCAGTCCTTGGGAAAGTCGTGTGATATGCGAGCTTAAGATGTGAGTTGATTTCTGGAACCTCTGGGAGGCAGGGAGAGACAGGCCTGAGAGACGGGACCTTAGAAAAACTGTGGCTTCTGAAGCAGAGGACGCTGTCTCCTGTCTTTCTCCTGAAGCAGCCAGTTTGCCGTTCCCTCGGCCGGTCTGAAAGCAGGAGTGCTCCCCTCTCCATAGCCACGGGTGGGCAGCTCCATGACCGTTCAGGCCCTCCACAGTAGGAAGGAAATGTTGTATTTGCGTGCACCCCATCTGCAAGCTCCTCTGTGCTTTAAACTATGTCTCGACTGCCTCTAATCCCGACAGCAGTGTAAACGGTGTCAGACTCTGTAGTGCTTGGAGAACAGTGACAACATCTGTATGTGCCTAACAGAGGCGTCTCCCCCGAACCTTTAGTCTGCAGTTTGTGGACTTGGCTATGACTACTTATAATATTGTTAATACTTTAGTACATTTTGTGTTGGTCTGAGAATGTTAACTACTACCTAGAATGCTCGTAGTTCAGAAACATAAGTTCTAAAGCTTTTAAAATGATTTTAACCTGTTCAGAATCCAGGACTTGGCAGGATTGTTGAGTTTTTGAACCCAAGTATTGTAACCCATGTATCAGCAAGATAGAACAGTCTCTCCCATATTTGCTGAGTTTTGGGTCGTCCTGGGTGGTAGATGTTCATCCTTCAGCACCGGGTGTTTTTCCTAGAGTGCACTAGGGGCGGGGTCAGGAGTTGAAGCAAATGGCCTATAAAGTCATTGAGGAAAGAGGGTCCCAGATCAGACAGGTCCCTAAGCTTTGGGCCTCCTAAAGCCTCCAGTTCCTGGGCCCCTGTTTCACCGCTGATGAGAGTGGCTCATGGGATAGTCTACTCTCAGCCCAAGAAATCTGAGCCTGTTTGCCTTTCCTCTGTACATCAGAGACAGACTGCATGGCTTTCTGTGAGGAGTGGCGAGGGTTATCTGTGTTATTTAGTCTTTGGAAGGCAGTTTTTAAACAACAGATTAGTTGCTAATTTCGTTTTACTTGTCCCAAGACTGAGATAAAGTTGCTTTCTCTGTACTCAGAGAATAAATGGAAGACAGTGTCGAATTAATGTGTATTCCACAAGAAGCTCAGAGAGGATTCACTGCCAAGGGGGATCTGGAAAAAAGGTCGGAGATTTCCTTAGGGGCCATTACAGTTCATGCTTTGTTTTGTGTTTCTAAAGCCTTTCCTTCAAAGGAGAACAAAAGGGAAAGTGGAATAGTGTTAAGTGTGGTTTGGTTTGTGCTCGTCTTCAGAGTTAAGATACAGAAACCACGCTTGTTTTCTCTCCTAG
Seq C2 exon
CCAACAAGGGACGATCGAGGATGGTTTATTAATCCCATTGGCCCCAATCCCTGGTGGACTGTGATAGCCGCAATTATCCCAGCTCTCCTGTGCACTATCCTGATATTCATGGACCAGCAGATCACCGCTGTCATCATTAACAGGAAGGAACACAAGCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023032-Slc4a8:NM_021530:17
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:
PF0095516=HCO3_cotransp=FE(11.1=100)

							
A:
NA

							
C2:
PF0095516=HCO3_cotransp=FE(10.3=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000023776





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000023776f1401A
          









    
Other Skipping Isoforms:
ENSMUSP00000125090
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr12:51485901-51488698 
ALTERNATIVE
HsaINT0153508
(SLC4A8)
Human
(hg19)
chr12:51879685-51882482 
ALTERNATIVE
HsaINT0153508
(SLC4A8)
Rat
(rn6)
chr7:142450511-142453378 
ALTERNATIVE
RnoINT0138574
(Slc4a8)
Cow
(bosTau6)
chr5:28481615-28484160 
LOW PSI
BtaINT0136176
(SLC4A8)
Chicken
(galGal4)
chrLGE22C19W28_E50C23:858467-858812 
LOW PSI
GgaINT1025745
(SLC4A8)
Chicken
(galGal3)
chrE22C19W28_E50C23:844323-844668 
LOW PSI
GgaINT0000832
([1])
Zebrafish
(danRer10)
No conservation detected
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"