Special

MmuINT0130221 @ mm9

Intron Retention

Gene
ENSMUSG00000036327 | Qsox2
Description
quiescin Q6 sulfhydryl oxidase 2 [Source:MGI Symbol;Acc:MGI:2387194]
Coordinates
chr2:26066794-26069689:-
Coord C1 exon
chr2:26069501-26069689
Coord A exon
chr2:26066980-26069500
Coord C2 exon
chr2:26066794-26066979
Length
2521 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TCTCTTTGCCTCCCTTCTAGGCC
3' ss Score
11.19
Exon sequences
Seq C1 exon
GCTTTGAAGGCCACCCCCAGGCTGTGTTGCAGGCCATCAGGAGATACATTCGCACATTCTTTGGGTGCAAAGAATGTGGTGAACATTTTGAGGAAATGGCTAAGGAGTCCATGGATTCTGTGAAAACTCCAGACCAAGCTGTTCTCTGGCTTTGGAGAAAGCACAACATGGTAAACAGCCGCCTGGCAG
Seq A exon
GTAAGAGGCCTGCATGTTCTTTGCTATTCCCACACTTGAGCACATAGCCTTGAGCCTGGATCTGGAGGGTCTGACCCACTGCAAGGCCCCCAAGGGTGCCCTAGACAGTGTGTTTGAGGACAGTAAGTTCCCTCTTGCTACTGCTTGCCCAGGGTGTCTCAGAGCACTGTGTCCTGTTGGCTTTGGAGCCCCTGGCCCTTGTAGACACAGATGGGGCTCTTTCTTTACCCGAATCTCCCTCCAATGCCACCCCTACAGCTTTACCACAAGTAATTATGAACTCTGGAAGGGGGGGGGGAACCTATAGCAATTTTGCTAAACACTTTTATTATCTTTAAAATCTGTTCTCAGGGACTGGAGATTTAGTTCAATTTGTAAAGTTCTTGCCATGCAGACAAGGATCTGAGGATCTGAGTTTATCTATTAAAAACATAACCTGGGTGGGCTGGAGAGATGGCTCAGTGGTTAAGAGCACCGACTGCTCTTCTGAAGGTCCTGAGTTCAAATCCCAGCAACCACATGGTAGCTCACAACCATCTGTAATGGGATCTGATACCCTCTTCTGGTGCATCTGAAGACAGCTACAGTGTACTTAGATATAATAATAAATAAATCTTAAAAACAAAACAAACCATAATCTGGGTACAATAACCCAGACCTACATTCTGGTGCTGGGGAGGATCCCTGGATCTTGCTGGCCAATCCAGCACAATCCATTCTGCAAACTCCAGGTTGAAGGACAGAGCCTGTTTCAGACCATGAGAGCATCAGAGAGTAACTGAGGAAGATGCTCTGTGCCCTGACCCTTTCCAGAGTGTGCACACATAGCACAGGCACCCAGACATGTACACACACACACACACATCTCAGATTGCTAAGCAAGCCTCACATGTGATTTTGTTTTAAGAAAACAAAATAGAGGGTCCATGTAGTCTGTCAGGGTTAAGTAATTCCCACTATTCCAAAATCAATGGCAGATTAAAATTAGGCTTAAGAGTAATTCTACTGAGAAATGAATTTAATAGAGATGAATGGAAAATGTCACTAAACTCTTGGTTTTTGTTTAATCTGCTGTATTATAAAGCATATTACAACTAAAGCACTAAAGAAAATTGGTTTTTCTTGGCACCAAGAGCAGACGGTGCCTTTCGTGTGGAGGATTTACTTTGCCTCAAGGCGCTGGTGTAGTGGCCCTTAGATAGGGATTTCTCTCTAATGCCTTCCCTAGCTCCCTCCCACCAGGCGCCTGGCTCTGAGGCAGCCAGAACAAGACACCAGCTGGACCTTGCCCAGTCCAGGGGCCCTGTTGTCCCCCACCACAAGTGCCCACATCATTAGGCCACAGCGGGAAGGGCTGTGTAGCCTGGTGTAATGTTGCTCCTGAGACTCCTCACCTCCTCACCAGGCCCACCAACCAGCCTAGGGGTTGGCTCGCTATCTTTGTCAGACCGTGCTTTGTTTTATGTAGAAGACTCCTGATATGTGTCTCAGAGAGTCCATCCGCATGTACTGGCTGACTCCTTCAGCCAGGGCTGGCTGGCCTTTGCCTTGTCTCCTCACCCTGTGTGTAGTGTAGCACCTATCACACACACACACACACACACACACACACAAATAGACCTGCCTTTATTAACTCTGTACACGCCACACTGTGGAGCAGAGGGGCACAGGGTAATCACAGCAGAGCAGTGTGCACTTCCATCTCTGGGGAGGGATCAAGGGAGCAGTAGGGACACCTTGGGAGAATCATGTTTCCGAATGGAAGCGTGTTTCAGCTGGGAAACACGCAGGAGCAGTGCCTGGTGGCTTCTGGTGTGTGCTTGCCAATACAGATGTGGGGATGACCTGGGAGGTGGCAAGACTCAAGGGGGACCTGTTTCCACTTAGGAGACAGGTTCATATGTATGTACTGCAAAATGTCCTGGTTTGTCTAAACATGAATTCCCCTACTGGAGTCAAGTCCAAGGTCTTTAGGAATCTTCAGGGCCTGGGGGTCAGGGAAAGGTTCTAGAGTGTGGAAAATATGTGAGTAGGTAGTGTTTGGGGCAGAGGAAGGGGGGATGCTTCCACCAGCCAGAGGGCTCAAGGGCTTTGTGAGGTTATGGGTCTCAAGGGCACTTTAAGACAGACACAAGCCAGCCATGGTGGTATAAGCCACAGGCAGATCTCTCTAATTTCAAGTCCAGCCTGGTCTATAGAACAAGTTCCAGGACAACCAGAGCTACACAGAGAAACCCTGTCTCAAACAAAATAGGACACAGAAGTGAGAACTTGATGGACCCATGCAGGAGGGAAGGTCTAGGTGAGTCATAGAGTCTAGTCCCTTGAGAGGCAAGTAGAGCCCAGAATGCAATGTACCTCCTTTGTATGCATGGCTTGCCAGAAAGAAGAGGGCATTTGGATGCCCAGGAGTGGTGGAGGGAGGAAAGCTGGGACAGTTAGTGTGCTAGGTAGGATGAGACATACTAGCATCCTGTGGCTGAAAGGTTTCTCTGTGGTTCTCTCTTTGCCTCCCTTCTAG
Seq C2 exon
GCCATTTGAGTGAGGACCCCAAGTTTCCAAAGGTTCCATGGCCCACTCCAGACCTCTGCCCAGCCTGCCATGAGGAAATTAAAGGCCTGGACAGCTGGAATGAGGGCCAGGTGCTTCTGTTCCTGAAACAGCACTATAGCAGGGACAACCTGGTGGACGCATACTCTGTGGACCAGGGCAGTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036327-Qsox2:NM_153559:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.073 A=NA C2=0.145
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF047778=Evr1_Alr=FE(61.2=100)

							
A:
NA

							
C2:
PF047778=Evr1_Alr=PD(14.6=23.8)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000112260





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000037128, ENSMUSP00000088807
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:136209276-136211263 
ALTERNATIVE
HsaINT0135818
(QSOX2)
Human
(hg19)
chr9:139101122-139103109 
ALTERNATIVE
HsaINT0135818
(QSOX2)
Rat
(rn6)
chr3:3665375-3667576 
ALTERNATIVE
RnoINT0121284
(Qsox2)
Cow
(bosTau6)
chr11:103747299-103749208 
LOW PSI
BtaINT0121058
(QSOX2)
Chicken
(galGal4)
chr17:8036916-8038971 
LOW PSI
GgaINT0125843
(QSOX2)
Chicken
(galGal3)
chr17:8727229-8729284 
LOW PSI
GgaINT0125843
(QSOX2)
Zebrafish
(danRer10)
chr5:63627058-63630164 
LOW PSI
DreINT0017532
(QSOX2)
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"