Special

MmuINT0009149 @ mm9

Intron Retention

Gene
ENSMUSG00000015787 | Abo
Description
ABO blood group (transferase A, alpha 1-3-N-acetylgalactosaminyltransferase, transferase B, alpha 1-3-galactosyltransferase) [Source:MGI Symbol;Acc:MGI:2135738]
Coordinates
chr2:26698023-26701610:-
Coord C1 exon
chr2:26701476-26701610
Coord A exon
chr2:26699395-26701475
Coord C2 exon
chr2:26698023-26699394
Length
2081 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
CCCGTTGTCCTCTCTCACAGGTA
3' ss Score
12.68
Exon sequences
Seq C1 exon
TAGGAAAGATGTTCTTGTCTTGACTCCTTGGCTGGCGCCCATCATCTGGGAGGGGACCTTCAACATCGACATATTGAATGAGCAGTTCAGGATTCGGAATACTACGATTGGACTGACTGTATTTGCTATCAAAAA
Seq A exon
GTAAGCAGTGGGGACTGGAGAGATGGCTAGTGGCTAAAACACTTGCTTGAGGGACATGAAGACATGAGTTTTATCCCTGATACCCATGGAAAAGCTGGGAATGGTGGCATGCGCCTGTAATCTCAACACCGTGGGTAGAGGGGAGAGACATGTGGATCCAGCCCACTTGTTGGACAGTCTAGCTAAACAGTGAGCTTTAGAGTCAATGAAGGGACCCTGTCTGAAGAACAAATAAAATAAATGATAGAAGATACCAAAAATCAACTTCTGGCCTTTACATGCACACAGGCAAGTAAACATGAATATATACAATACACGTGCACACCCCCTCACATATGCACACACAGTGGTCAAGTGGAGGCACAGGCATACCAAGCTGCATGCTTGTATTTAGATTGAATTGAGGGAGGGGCTTGTTCACTCTGCTACCTTCCTGAGCTCTGGTGGGCTCACAAGTGAATGAACCCAGTCCTGCCTTATCCCAGAGCCTCAGGGCAGCTGCCCTTCCAACTGTGCTCTCAGCCAGGTGCCATTTGCATCAGTCATCACTCACTTCACCTTGGTCTCTTCATCCCTAGAGCTGGCAGGAAGGAGCAGGATGCCAGCAGAGCTGTCAGCTGTGGCCACTGATGTGCCCTCAGATGCAGGACAAGGTGGACATCAAGGGTTGAGTGGAACATTTAGCCTTAGCCCTGGGGACAGCAGGTAGTAGTAGACCTGTGAAGCCCTGGGACTCTGGGTCAGGCTGACTTTAGGCCACAGGCAAGAAATGTGCCCTGTGGGAGCCTGTGGGAAGCAGGAAAGGGCAACATTATAGTGTGGAAGGCTGTGAATGCTGAGAGAAGCCATCTGGGCTGCCAGCACATATGAAGAGCATTGTGCCTTCCTGGCTGAGGTCCAAGGATAGTTCTGAGGCCTTTGAACCAAGCAGACTTGAGAGATGTTTGGGGCTTAGTTGGAGGGATCTTAGGCACCTTGAGAATGTCTGCAGCTCCTAGGGACAAAGGACTTTACAGTAAGAAGACACAAACACTACCTTGTTTGGGTGCTGCTGGGTACATCAGCAAGAACCCTGCCAGGTGTGGGTAGCTGCTTTGTCTGTGGAAAGAAGACCTCTGAGGGGACTAGCAGGGAACCCCATGGTCACCTTTATGCAGGGAAAACTGCCACTTGCTTGTTTCTGACATTTAAGTGGGGGCTTTGCACATTTGCCAGGTGATGGGGAGCCCTGTTTCCATGGTGGGGACACATGGCCCTGGGGGTCATCCAGGGAGGGGCAGCCATCTGAATCAGGTAAAATCTTGGACTGGAAGATGACTTAGAACCTGGGTTCTAAGGTTTTTGTCCTTGGACCTGAGGGTTTGTTTTAGGCTTGCCCTTGTTTCTAGGGTGCCTTTTACCCCTGCACCTTGTGAGACCAGTTCTTGTTCTGGGGCAGTTCATGGGGGCTGACTCTTAATAATATACCTGAGTTCCTGTGTGCCTTTTCTCAAGGCACCATAAGTCTTCTGAGGGAGAAGTCTGGGATATAGAGACCCATTGCTTTCTTGAGACAGGGCCCTGCAGCATGCCACAAAGGAGGGGTGCAGGTTCCAGGCCCTTAAGGATCCATTCAGTTCCACTAGGGTTTAAAAGTGGGGTTCTATGAGCAGAGGCTCTGCTCAGGTCAGTGCAAGTGTATGAAGTGTGGAATGTCCTGGGATGAAGCTGTCATTTTTGGAGGGTGTGTGTGACAGACTCATGGAGAGGTGGCCTGCTAGAGTTGCCAAGACAACAGATACCTGTGGCAGATATGCCTGGGACTCCAGTTGAGGAGTCAGCCCTGCCGCCTGGTTGAAAGCTCCCAGGCTTCTGGCTCAGTGTTCCTTGCTAAAATGGGCTGCTGATGTTGCAGCCTTCTGCAGCAAATGAGGGTAAGGTGAGGTACAGCCTTGTAGACTGGTTAGGACAGCAGTCTAACCAGGACAGGGGAGGGATCTAGCCTCCGGGTAGCTATGGTTTCTGCAGCCTGGGCCTATGCCCTGGTAAGTCTTGTTCTAGCTGTGTTAAACCTTTCCATACCCCGTTGTCCTCTCTCACAG
Seq C2 exon
GTATGTGGTGTTCCTTAAGCTGTTCCTTGAGACTGCAGAACAACACTTCATGGTGGGACACAAGGTCATCTACTATGTCTTCACTGACCGTCCAGCTGATGTGCCACAGGTGATCCTGGGTGCAGGACGGCAACTGGTGGTGCTAACTGTGCGCAACTATACTCGATGGCAGGATGTGTCCATGCACAGGATGGAGATGATCAGCCACTTCTCAGAGCGACGCTTTCTACGTGAGGTGGATTACCTGGTGTGTGCAGATGCGGACATGAAGTTCAGTGACCATGTGGGTGTGGAGATTCTCTCAACATTCTTTGGCACTCTGCACCCTGGCTTCTACAGTAGCAGCCGAGAGGCCTTTACCTATGAGCGCCGGCCACAGTCCCAGGCCTACATCCCCTGGGACAGGGGTGACTTTTACTACGGAGGAGCCTTCTTTGGGGGGTCAGTGCTAGAAGTGTACCATCTCACCAAGGCCTGCCATGAAGCTATGATGGAGGACAAGGCCAACGGCATTGAGCCTGTGTGGCATGATGAGAGCTATTTGAACAAATACCTGCTTTACCATAAGCCTACAAAGGTGCTGTCCCCAGAGTATTTGTGGGACCAGCAGCTGCTGGGCTGGCCCTCCATCATGAAGAAGCTGAGATATGTGGCTGTGCCCAAGGACCATCAGGCAATCAGAAACTAATAGCTAAATTCCTATTGGAGAGGACAGGCTGATAGCCAGGTGGCACTCCAGGCTGTGATGAAACTAAAAGGATTTGAGAGCCAATTGTCATCCTCTATCCCACCTCAGAGTCCAGCAGACCCAGTATCACTTGGCTTACCACACACTTTGAGCCCTGGAGTGGCAACCACCTTCAGCTCCACTGTGTGTCCCTAAGCTCCTTTTACTGAGTGACATGGTAGATGGAGCTTTCAGAACATGAAAAAATTCTTGTCATATAGTTATCTGGGGGCATGTGCATCCTCACTCAGGCTTGTCTGGTGCTGGGAGGCTGATGGAGGACCAGGCAGGAGGGCAGGAAGCATCAGCCTGCAGTCCACAGAGGGACATAGTTCACTCGGGGCAGATCAGCACCCTGTGCCCATAACCTCTGCTCATTTTTGGTTTATTTGGGAATATCTAGCTATCCATTCTAGGGAATAAATAAGTTTCTACGTAGTATAGGAAGTTTTTAGTTTCCCCCCTTTTGTTTTGAGGTATTTGGGATTGAACCCAGTGTCTCGTGAATGCTATTCAGGCACGCAGACTATCTTAGAGACACATACTGACTGAACTTGATGTGTGCTACATCTACTATATTTTTATTGATACAGTCTCTAGTAGTTCAAGCTGGTTTCAGCCTTACTATGATGGTCTTATGCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015787-Abo:NM_030718:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF034148=Glyco_transf_6=FE(15.1=100)

							
A:
NA

							
C2:
PF034148=Glyco_transf_6=PD(76.3=99.1)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000109679





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000099964
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:133256357-133257408 
ALTERNATIVE
HsaINT0001886
(ABO)
Human
(hg19)
chr9:136131744-136132795 
ALTERNATIVE
HsaINT0001886
(ABO)
Rat
(rn6)
chr3:5123500-5126213 
ALTERNATIVE
RnoINT0011415
(Abo3)
Cow
(bosTau6)
chr11:104232982-104233080 
BtaINT0000470
([1])
Chicken
(galGal4)
chr17:6833145-6833700 
ALTERNATIVE
GgaINT0124655
(GBGT1)
Chicken
(galGal3)
chr17:7497115-7497670 
ALTERNATIVE
GgaINT0124655
(GBGT1)
Zebrafish
(danRer10)
chr5:24521944-24522475 
LOW PSI
DreINT0024706
(abo)
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"