Special

HsaALTA1044186-2/4 @ hg38

Alternative 3'ss

Gene
ENSG00000168334 | XIRP1
Description
xin actin binding repeat containing 1 [Source:HGNC Symbol;Acc:HGNC:14301]
Coordinates
chr3:39186089-39192596:-
Coord C1 exon
chr3:39192446-39192596
Coord A exon
chr3:39189447-39189449
Coord C2 exon
chr3:39186089-39189446
Length
3 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TCTCTGCCCCTTCTTCTCAGAAG
3' ss Score
8.66
Exon sequences
Seq C1 exon
GACAGAGACCTGGAGCCAGGGCAGCAAGAAGGTGTCTGTTGGAGCCAGCAGAACAGAACCAATTTGAACAAGAACCTCCAGAGGAACGACGAACCCTGAGACCACAGCTGCTACAGACCACAAACACCCCATCAGCCAAGAGAGACCCTTG
Seq A exon
AAG
Seq C2 exon
GATGGCCGACACCCAGACACAGGTGGCCCCCACACCAACCATGAGGATGGCAACTGCAGAGGACCTGCCCCTCCCTCCACCCCCAGCCCTGGAGGACCTGCCACTGCCGCCACCCAAGGAATCCTTCTCCAAGTTCCATCAGCAGCGGCAAGCTAGTGAGCTCCGCCGCCTCTACAGGCACATCCACCCTGAGCTCCGCAAGAATCTGGCTGAGGCTGTGGCCGAGGATCTGGCTGAGGTCCTGGGCTCTGAGGAACCCACCGAGGGTGACGTTCAGTGCATGCGCTGGATCTTTGAGAACTGGAGACTGGATGCCATTGGAGAACACGAGAGGCCAGCTGCCAAGGAGCCCGTGCTGTGTGGTGACGTCCAGGCCACCTCCCGCAAGTTTGAGGAAGGCTCCTTTGCCAACAGCACAGACCAGGAGCCAACCAGGCCCCAGCCAGGTGGAGGAGACGTTCGTGCAGCCCGCTGGCTATTTGAGACAAAGCCACTGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168334-0-3,0-2,0-1,0-0-2/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
5' UTR





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=NA A=NA C2=0.640
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
NA

							
C2:
PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.3),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4),PF080437=Xin=WD(100=1.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSP00000343140





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSP00000379550
  



Associated events







Conservation


Mouse
(mm10)
chr9:120019820-120019821 
Mouse
(mm9)
No conservation detected
Rat
(rn6)
chr8:128704895-128708273 
ALTERNATIVE
RnoALTA0045003-4/4
(Xirp1)
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
chr2:4952735-4952736 
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCTACAGACCACAAACACCCC

				
R: 
CCATCCTCATGGTTGGTGTGG

				
Band lengths: 
92-95

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Autistic and control brains





Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"