Special

MmuINT0057663 @ mm9

Intron Retention

Gene
ENSMUSG00000048120 | Entpd1
Description
ectonucleoside triphosphate diphosphohydrolase 1 [Source:MGI Symbol;Acc:MGI:102805]
Coordinates
chr19:40794947-40797727:+
Coord C1 exon
chr19:40794947-40795064
Coord A exon
chr19:40795065-40797576
Coord C2 exon
chr19:40797577-40797727
Length
2512 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CCGACTGTATCTTCCCTCAGGTC
3' ss Score
10.11
Exon sequences
Seq C1 exon
TATGGGATTGTGTTGGATGCGGGGTCATCTCACACCAACCTGTACATCTACAAGTGGCCGGCCGAGAAGGAGAATGACACAGGGGTGGTGCAGCAGTTAGAGGAATGCCAAGTGAAAG
Seq A exon
GTAAGACGGGGGCGGGGCACGGAACGGGAAGAGCGGGCCACAGGAATGTGAGAGGCGTGAGGATCTGCCGTTGGTATTTTATTATCACTGTAAAATGACACTGAGCCAGGCCTAGTAGCACAGGCTGGAAAGCAGGTGGATCATCAATGTTCAGGCCAGCCTGGACCACCTAGTAAGACTCCGCTTTAAACAAGACACAGATGTAGCTCAGCGGTTGTAGCATATGCCTCACATGCATGAGGCCCTGTGGTCAGTCCTTATTACTACTGCCAGTAGTAACAATAATGTTGAGATCAATTCTTGAAAAATAGGCAAATTTAAAAATAGCTGAAGGTGTCACTCAATGGTATTGTACAGGCTTAATATTCATGATGTTCTAGGTTAGGTTCTCAGCAAAACACACACACACACACACACACACACACACACATGAACTGAGCAATAGTAGCCCTCGTCAATAGGGCATGTCTGTGTATACTTGTATCATGCTTACAGCAATGTATCATGAACTCAGCACACATTTTTCACTCTCATGATCTGGTAGGTGAGCAGCAGCAGCTCTGTCCTAAAAACAAGGGCTGCGAGATAAGACAGCTCATGCCACGTGTTTAAAGTTACTTAAGTTGGGGACTGATGGATCTGGCTGACATATCCACATCTCAGCCGTGGTTCTCAGACTTGAAATGGCCTAGCACTACCTGGGGTGGGGGTTGGTGGGAGCTCTTAGCACACAGACATAGGGCCGCCTACAGCCAGAGATCCCAAGTCAACAGGTCTGGGTGGGAGCCTGGGGCTTTACATTTCTACCAAGTTCCCTGGTGCTTCTGGTGGGATGCTCGACCTCTCTTCTTATTTTCTATTTTCGGCTCAGACTGCAACCTGGAGGAAAACCTCAAAAGCTTTTGTTCTCTTCAGAGGCAGAGAAGAGTAGATCACAGACTTTTAGGGTGGGGAGGGGGGCGGGGGGGGGGCGGGGGGGTGTCATTTAAATCTCATTTTCCAGGGAAGGAAGCTGAAGCCTGGAGGACCCTGTAAGTTTCGAGAGTCCAGATGGTGGTCCAGGCCCCTAGCCACACTACAGGCTCCCACAGAAGCACTGCTGATAATCTCCCCCATACCCCGTCCCAGCCAAAGTCACTTTTAACATCACACCTGGAGGATGGCTGATAGCTCAGCTACCCTGACTTGCTCTCCGCCACGCGCCCCTGTGAGCTTTGTCTCTGCTGGCCTTTTGAGCCAAGAACACACTGGCTTTTTTTTTCAAACAGGTCGTCTAGATCTCAGGAGAGACGTGACTTTTAATCTGATGGCGAATAGCTTCCACTGACCTTTGTAATTTGCCAAGGAACTGGGCAGGGTTAGAAAGAGAAAGCCACTCTCCCTGGACCCTGGTGTGCCAGTACTGAGGCCTTGCTACGACCGAGGCGGTGCTCATGAAGGTTCTTTCTTCTGAGGATCATCTCATGAATGCATGTGTTTGAACCCACACATACAGAGTTAGCAGAACGCTGAGGTCAGATTTCCTGAATCAGAAGCAAGCCACTAACAGAGCTTGGGGCTTCTCATTATGTTACACAAACAGGCGTTTAAAAAGCCCGTTTGAATAATCACCTTGAAAGCAAACTCTTGGTAGGAAGCAGTCGAATTCACCTCAGGGTAGGAGTCTTGGCTCCAGTCCTCTCCATAACAACCGTTAGTTTGCTCTAAAATTGAAATAACAGTCTTAGTAGGGAGGCAGGGGTACCAGAGCAGAAAAGACTCAGGGTCTGCAGACTCTGTTTCTGTTTATTCTAACAAAGGAAGAAACCCCATAAATGTTAGGGCATACTCTATGACATAACTAGTTAATGACACACTCTGTCTTTTCAGGAAAAGCCAGCGTGTTGGGTACTTTCCACTAAATGCCATCTTTACCTAGGCCCTCTAGGAACTAATGTTGTTAATTACAGCTCTGTGGAAAGGATCATTCAAAAGAGGCCAACAGAGAACCCACTGTAAGAGCTGCATTAGTGCCAGAGGATGTGAAATGGCACCACCTTGTGGCCAAATCAATGAACACCAGGTTTTACCAGCAAAATTTTAAAATTACAAGATTTAAAAAATACAATACTACATATACATGTGTTAGCTACTTTTTTTCCAAGACTTTAATGAAATACTTGAGAGAGAAACTTAAGGGAAATAGGGCTTATATTGGCCCTTGCTTCTAAGGGAGACATGTCCATCATGGTGGGGAAACCATGGCAACAGGAGCTTTGCAGTCCACATCCTAACTCCCCAGGTAAACCTCTCTGCAAACAGCCTCACAGACACACCCAAAAGGGTGCCACGCCCATCCACTAGGTGCTTCTGACTGCAGCCGCTCTCCCCGCTAAGAAATATAACCCAATGTACGCCATGCCAAGAAGCGTTTCCTCCCATTTTCCTAGCAAACACTTTTAAAAAATATGGTCAAGGTAGACGCTCCACACTTTTTCTTTTAAAGGTTTTCACCGACTGTATCTTCCCTCAG
Seq C2 exon
GTCCTGGAATCTCAAAATATGCTCAGAAAACAGATGAAATCGGTGCGTACCTGGCCGAATGCATGGAACTGTCCACCGAACTGATACCAACATCCAAGCATCACCAGACTCCTGTCTACCTGGGAGCCACAGCAGGCATGCGCTTGCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048120-Entpd1:NM_009848:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.021 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0115012=GDA1_CD39=FE(16.2=100)

							
A:
NA

							
C2:
PF0115012=GDA1_CD39=FE(11.6=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000116285





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000107850, ENSMUSP00000116349, ENSMUSP00000117213
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr10:95839809-95842343 
LOW PSI
HsaINT0056481
(ENTPD1)
Human
(hg19)
chr10:97599566-97602100 
LOW PSI
HsaINT0056481
(ENTPD1)
Rat
(rn6)
chr1:259796287-259798889 
Cow
(bosTau6)
chr26:17118248-17121338 
LOW PSI
BtaINT0056484
(ENTPD1)
Chicken
(galGal4)
chr6:21572852-21573499 
ALTERNATIVE
GgaINT0043432
(ENTPD1)
Chicken
(galGal3)
chr6:23438303-23438950 
LOW PSI
GgaINT0043432
(F1P328_CHICK)
Zebrafish
(danRer10)
chr6:41049096-41050194 
LOW PSI
DreINT0063287
(entpd8)
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"