Special

MmuINT0163994 @ mm9

Intron Retention

Gene
ENSMUSG00000026849 | Tor1a
Description
torsin family 1, member A (torsin A) [Source:MGI Symbol;Acc:MGI:1353568]
Coordinates
chr2:30819214-30822875:-
Coord C1 exon
chr2:30822610-30822875
Coord A exon
chr2:30819390-30822609
Coord C2 exon
chr2:30819214-30819389
Length
3220 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGA
5' ss Score
2.81
3' ss Seq
AGGGCCCCCTTGTCCTTCAGGAC
3' ss Score
8.8
Exon sequences
Seq C1 exon
CGCTGCAGAAAGATCTGGATAACAAGCTCTTTGGACAGCATCTTGCAAAAAAAGTCATCCTAAACGCCGTGTCTGGTTTCCTAAGCAACCCGAAGCCCAAGAAGCCCCTTACCCTCTCTCTGCACGGGTGGACGGGCACCGGCAAAAACTTCGCCAGCAAGATCATCGCGGAGAATATTTACGAGGGCGGACTGAACAGTGACTATGTACACCTGTTTGTGGCCACGCTACACTTCCCCCACGCCTCTAACATCACACAGTATAAG
Seq A exon
GCAAGAGCATTAAGTTGACCGCCTTCGCGGATGACCCGGAATTGGGGTTTCTCTGTTGTGGGGTGGGATGTGGGAATTCCACGTCAGTGAGTGAGCCACAACATGGCTCTCTGTATGTCAGTTCCTCTTTAAAAGGTGTGCACAGAAGTGGTCATATCCCTTGGAGGAATGACAGCTGAAGCTAGGCTACCGTGTTTTAAAGGGGACTGTCAAGAGCTGGGGGTAGCTCGGCATAGAGCACTTGCCCAGAATGTGGGAAGTTCTGTATTATGTCTCTCCACCCCAACTCCCACAACTCCCGCTGTGGCGAGGGTGCACTGGGGGATAGATATGTAAGTTACAAAGGGTTTGAGATACATAGAGCAGTTAGACCACCAAAGTTTTATGAGTGGCCTCTGTGACACTCATAAAGTGACTCGGTAAGGTGACAACTTGGCTGGGAAGTGGGGACATAACAACTCCAGGGTCTTTAGGAGTCGCCTCCCCCCGCCCCCTGTTGTGAAAAGGAAACCTAGAGGCCAAGTTTGCTTTGACCCAGCTGTTGCAACCTGCTATTGGAGTTTAATTCTGATAACAGGCTCACACCTGAATTCAGGTTCGGTCCCTCCCTCCCTACAGCTGTGCAGTAGGGGCTGTCACTTAACTTGAGCAGGGACATTCTTTATCTTAGAATGGTGCTTCAACCTCGAGTCTGTTAGTGCACCCCCTTTCTGTTGAGCATTGTGTGGCCATAACTGTGGCTTTGTGCAGGTTGTTTAATCTTGGTGCCTGAGGTCAGCGGGTGTTTTCCTACACACCTGTATTCCCAGCAGGCTGAGGCAGGAGGATCACACCTTTGAGGTTAGTCTGGGCTACATAGTAAGCTTCTGTTTGAAAACAGAAATGGAGAGGATGTCAGGTGGAGGAAGAGGAGAAAATAGGGGCTCAGTATCATTTCCTCAATGGCTTTGGGGAGAAGATTCAAAAATGTTGTCATAGCCAGGCATGGTGGCGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCAGATTTCTGAGTTCGAGGCCAGCCTGGCCTACAGCATGAGTTCTAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTTGAAAAACAAAACAAACAAAACAAAAAATGTTGAGTTAACAGAGCTTGGAACGGTGTCTCGCAGCAGTGGGCGCTTGCTCACAGTCTGGGGCAGGAGACTGGGCAGACCTTCTCTGTGGAGTTCTAACGACTGAGTGAGTTGTATGGAACCATGAGTTGCCACATGATTCAGGTCACTGTAGGTTCCTCTAAGGCAGTTTCTCAACCTTCCTAATGCTGTGACTCTTTAATTCAGTTCCTCATAAAATGATTTCGGTATTACTTCAGAACTGTAATTTTGTAACTGTTATGAATCTTAACACAAATATCTGATCTGCAGGTATTTGATAAGTGCGCCCCGGGGGTCTCGACACACAGGTTGAGAACCGCTGCTGGGAGGGGAAGCTGGTCCATACCTGCAGAGTTGCTGCTTACATTAGATACAAAGGAGAACTGTATTGTGGTCACAGAGCAGTGGAAACACCCTAAGCAGATAGATGTACAGTGTAGCTGTTCGTGTGTTCTTTAGAAAGATACATGGCTGCCTTCCCCAGCTCACTTCAAGAGGAGGGTGGCTGGAAATACCTACACCCTAGGTAGGATTTGGGCTCAGTTTTCCCAGGAAGATGCTTTAAGAGGTCTGTGTGTCTCCCCTTGATGGCTCAGTGTATACGAACCTGGCTGGGGTTTGTCTGGGGCTGGCTTAGGGTGACTGAGGCTCTGACTTCATTCTTTAGCATCTGCCCCACCGAACAACCAAATACAAATAAGGTGGGCTCGTTTGTCTGCTTTATTCTTGAGCCCGCTGCCCATGAGCTCATTGTTGCAGCCTGAACTGTGTTTATTATCATCATCATCATTTTAGTTTGGTTTGTTTTTAATTTTGTGTTTGTGTGTGCTTGTCATCATGTGTGTACACATGTCTGTCTCTAGTGATGTGCCTCAGGATCTGTCTACATTTTTTTGAGACAGGGTCTGTCATTGAGACCTGGGCCTGCCTACCAGGCAAGTCCCATGGCTTCTGTCTTTGCTTCCTCAGTACTCTTAGGGCTCTCCCTGGCTTCCTCTCAGGGGCGCTTGTAAGACAGGCACTTTACCCCACTAAGCTTTCTTCCCAGCCCTGGCCTGGAGCTCTTGCTCTGTCTCAGCAGGATCACAAATGAATGTCACCGTGTCCATCTCCAAATGCATTCGTAGAGTGTGTTGCTGGTCGGGAGAGCCTCGTCACCCCCTCCCAGGATGCCGAGCGAGCAAGTTCAGACTCCCTAAGGGAGCCTCTGATTGAGTCAGTGCTTTGCAGGCTGGACTGCAGAGGAAGGGCTGAGGTGATGGTGGGTTCCTGCCTCTCATCCAGAGGCTGTCATCACAGGATAGATGTGACATTGTGAGGACAGAGCTGGTGCCTGGCTGACACAAGGTCACAAACCTGGAGCGTTGGCATAGGACAGGGTTGGGCTGAGATCCCAGCCTGCCTCAGCCTAACTACGTTTTCTTAGGCAAGCGCTCTGTAGCTCAGGGTCCTCGTCTGTGGCATGGGTATGATGCTATCCACACAGGAAGTGCTTGTGAGGCCAAAGGTGTATGGGTGTGATGCTCATAGCACAGTGCTCCAGAAACACAGCCATTGTCCTGAGGGCCTGGGCTTGTTTAGCACTAGTGAGGCTCTGGGTAAATGCACACAAAAAACAAAGAAACCCAAAGCTGATAGCATTGTGTCGACGACTTCCCTGCCTCCCCTCCCTACCCCCCTGAGCTCTTAATTGTAGAAGGAATCATTTGTGCAATGCGTGGAAGCATTCACCTGTCAATAAAAACGCTGACTAGCCAATGAGCTGAGGCAGAACTAGAAGGTAGGACATCGGCAGAGATATAGAGTTGGAAGCATGGGAAATTGGCCCCAGACTGCAGATGGAGAGACACATGAAACTGAAGGAAAGAGAACTTGCCGGGTGACACTCACAGAATAGAATAATCAGGATTATTGAGATAAGAGCTAGTTGGGGAACAGAGCCAACACTCTGGGCTCCAGTATTTCTTCATTTATACTTGAGTCTCAGAGTCATTATTTCGGAGAACTTGGGTGTGGGTGTCGAAGCCCGCAGTTACACTGAAGGGCCCCCTTGTCCTTCAG
Seq C2 exon
GACCAGTTACAGATGTGGATCAGAGGCAACGTGAGCGCCTGTGCTCGCTCCATCTTCATCTTTGATGAGATGGACAAGATGCATGCCGGCCTCATCGACGCCATCAAGCCTTTCCTAGACTATTACGATGTGGTAGATGAGGTCTCCTATCAGAAAGCCATCTTCATCTTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026849-Tor1a:NM_144884:2
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:
PF063096=Torsin=FE(69.8=100)

							
A:
NA

							
C2:
PF063096=Torsin=PD(15.9=33.9)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000028200





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000128959
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:129804339-129807187 
ALTERNATIVE
HsaINT0171024
(TOR1B)
Human
(hg19)
chr9:132566618-132569466 
ALTERNATIVE
HsaINT0171024
(TOR1B)
Rat
(rn6)
chr3:9793876-9795798 
ALTERNATIVE
RnoINT0154641
(Tor1b)
Cow
(bosTau6)
chr11:100223444-100226039 
LOW PSI
BtaINT0151630
(TOR1A)
Chicken
(galGal4)
chr17:5694854-5696112 
ALTERNATIVE
GgaINT0125854
(TOR1B)
Chicken
(galGal3)
chr17:6259088-6259718 
LOW PSI
GgaINT0125847
(TOR1A)
Zebrafish
(danRer10)
chr21:3629041-3631578 
LOW PSI
DreINT0166559
(tor1)
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"