Special

MmuINT0168770 @ mm9

Intron Retention

Gene
ENSMUSG00000001924 | Uba1
Description
ubiquitin-like modifier activating enzyme 1 [Source:MGI Symbol;Acc:MGI:98890]
Coordinates
chrX:20249942-20252877:+
Coord C1 exon
chrX:20249942-20250097
Coord A exon
chrX:20250098-20252711
Coord C2 exon
chrX:20252712-20252877
Length
2614 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGA
5' ss Score
8.94
3' ss Seq
TGCATCTCCTGATTTCACAGAAG
3' ss Score
7.42
Exon sequences
Seq C1 exon
GTGGGTGCAGGGGCCATTGGCTGTGAATTGCTCAAGAACTTTGCCATGATTGGGCTGGGTTGTGGAGAGGGTGGAGAGGTCGTGGTCACAGACATGGACACCATTGAGAAATCAAATCTGAACCGACAGTTTCTCTTCCGGCCCTGGGATGTCACG
Seq A exon
GTGAGATGGATGGGAATAGGGGAATAGATCATCTCATTTTCCTGTCTTTTTCCTATCCACGGTATTTCAATTAGAGATATACTTATCTTTCCTTTGACCCTTTTCATTCCCCTGTTTCTGTCATTTATTCAGCAAACATTAAATAGTCCTACCTTGAATCAGTTATTTTCTTCTCTTTTCTTTTCTTTCTTTTTCTCTTTTTCTTTCTCTCTCTCTCCCTCCCTCCCTCCCGCTCCCTCTCGCCCTCCCTCCTTCCCTCCTTCCCTCCCTTCCTTTCTTCCTTTCTCTCTTTCTTTTTTAGTACTCGGGCTTGAATCTAAAGCTAACTGTATGTAGCCTCCCTGCATGCTAGACAGGTAGTTACAAAGACTACCACTGAGCTGCCCTTTCATTTCCTTTTTCTGTTGACTTTTTTTTTAAATAAAGATTTGTTTACTTATTTATTTTATTTTTTAATGTATATGAGTACACTGTAGCTGTACTGATGGTTGTGAGCCATCGTGTGGTTGCTGGGAATTTGAGTTCAGGACCTCTGCTTGCTGAACTCAGCACCAGAAGAGGGCGTGCATCAGATCTCATTATGGGTGGTTGTGAGCCAACATGTGGTTGCTGGGATTTGAACTCAGGACCTTCGGAAGAGCAGTCAAGTCAGTGCTCTTAACTGCTGAGCCATCTCTCCAGCCCCCCTATTGACTTTTTTATAAAGAAAAGATTTATTTATTGCTAGGTGTGTTGTGGCACATCTTCTTCCCCCATTAATTAATTAATTTATTTACTTTACATCCCAATCACACTCCCCTCCGCCCCACATACGCAGCAGCAGTGCAGCTTGGTCTTCATGTAGGCCCCTCAACAACTGTGGCACATCTTTAATCCCAGCACTCATATATATATATATATATATATATGAATGAGAGACTGCGTGTATATATGTCTACTGTGTGTGTGCCTAGTCCCTGAAGACACTGGACGAGTATGTTGGATCCTCTAGAATTGTAATTTTGGGGTTATAAGTGGATTGTGAGCCATCAGATGTATTGAGAACCAAAACTTAGTCCTCTGGAAGAACAACAATCTAGCCCTTATCACTGATGCTTTGAGACAATTGTCTTGAGGGTTTTCAGAAATATTCCCGAACTCACTGACTGCCTAGGAGGACTAGTGAATGGTTTATTGCAAAAAAAGAACACCGCACAATCAACAAGGGAAGAACGAAGTCAGTAGCAAACGTCTTCTTAATAGTTATGTCCCAGCAGGGTTATGGAAGGTGGATTTCCCCAGTAACAAATATAACAGTACTCTTAAAAGGTTTCTAGCCAGGGAAGCCGTATCAGAATTCCTGAATCTAGAGGGAAAGAAGGTGCTTAACATAAACTATTCTGTTCACACAAACAGTTCAGGCACACTGAGCCATTATCTTTAGGTGGGGTGGTGATGGGGACTTTTCCTAAAATCTAAATTCCTAGACGCCAGCCAAAGGACACTTTTAGAAATAGGCCTTCTGAAGGATGACATTGTAGTAAAGCCAGGTGACTCTTCAGTTTGAAACTGAGGTCCCTTATGAGGCCTATAAGACCAGTATCATTGTTACCTGTCTGGTATTCCTATTCCTTAAGTTATTCACTGAATAGTAACTTTAGCAGTTACTGTTGAAAATACTTGAGTGATAATAAAGAGTAAAATGAGGCAGGACACTGTTCATACCTTCTCAGTGCTGGAGAGGCAGGTAAATCTCTGAGTTCAAGGACAGGGTGGGCCACAAAGTGAGTTCCAGGACAGCCAGGTCTACACCGGAAACCCTGTCTCAAAAAATAAAAACTAAATAAAGGTTCTAGCAGAGGAAGGTAAATAATAAAGAATGGGTATATTATTGATAAAATATAGATATAGCTAGGCCCACCCATGTACTAAGGAGGCAGAGGCAGGCAGAGTTTGAGGCCAATCTGGTCTACATAGTAATTTCCATGACAGAGCTACATAGAACCTGTCTCAAAACAACGAAGAAACAACATTGATAAAATATAAAAGTAAGCTACAGAATCTGTGTTGGCACTTAGTAAAGGAGAAAGGAGCAAAGTTGTGCTTGCGAGGGGGGGCGGTTAGGTTACTTTGTCGATTTCATTATGATCCTTATGGAAGGTCTCATTTCCACTCAGAGGTCCTGGAATCAGTTCACTTCACCCTAAGTGGCGATAAGAGCCAGGGAAAGGTTCTAAGCATAGGAGGGACGTGACCTGACTTTGCTTTCATAACACTTACGCTTATTTATTGTTGAACCATCTGGTTATGTTTGGGGAAATCTATTCTAACTTAAAATGCTGCTCTTTAAAAGAACAGTAGGTATCACATCAACAAAAACCCAGGTGGCTGGCTAGTCCATTGTCTACAATACATACTTGTCTTCTGCTTTCTTTTCCATCTCATTGCCACCATCTTTTCCATCTCAGCCCTGGCCATGTGGCATTATCTTAGAATATTCTGCTAAGCCAGGGAGCCTCCTGAACTCAAGGCCTGATTCTTCTAGCATCAGATGAGTGTTCAGGGGGACAGCTCTCTATGATGTTGAGTGAATACACCCATGTTCTACTCTCAACTGCATCTCCTGATTTCACAG
Seq C2 exon
AAGTTAAAGTCTGACACGGCCGCTGCAGCTGTGCGCCAGATGAATCCTTACATCCAGGTGACAAGCCACCAGAACCGTGTAGGTCCTGACACTGAGCGCATCTATGATGATGATTTCTTCCAAAATTTGGATGGTGTGGCCAATGCTCTGGACAACATAGATGCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001924-Uba1:NM_001136085:14
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=0.054
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0089916=ThiF=FE(35.2=100)

							
A:
NA

							
C2:
PF0089916=ThiF=FE(37.9=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000001989





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000086626
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chrX:47203697-47205947 
LOW PSI
HsaINT0175998
(UBA1)
Human
(hg19)
chrX:47063096-47065346 
LOW PSI
HsaINT0175998
(UBA1)
Rat
(rn6)
chrX:1730288-1732721 
LOW PSI
RnoINT0158923
(Uba1)
Cow
(bosTau6)
chrX:90840719-90842359 
LOW PSI
BtaINT0155881
(UBA1)
Chicken
(galGal4)
chr12:2431804-2431883 
ALTERNATIVE
GgaINT0022374
(UBA7)
Chicken
(galGal3)
chr12:2268653-2268732 
ALTERNATIVE
GgaINT0022374
(F1P543_CHICK)
Zebrafish
(danRer10)
chr23:20729349-20729464 
LOW PSI
DreINT0170297
(uba1)
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"