Special

MmuALTA0010382-2/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000030922 | Lyrm1
Description
LYR motif containing 1 [Source:MGI Symbol;Acc:MGI:1921169]
Coordinates
chr7:127043625-127053476:+
Coord C1 exon
chr7:127043625-127043822
Coord A exon
chr7:127053185-127053317
Coord C2 exon
chr7:127053318-127053476
Length
133 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
TGTTTCTACTCTGCCCACAGATC
3' ss Score
11.44
Exon sequences
Seq C1 exon
GTAAAGTACACCTTTACTTCCTAGTGCTCAGTATTTTAATGAAATATCTCATGAATAATCCTTACAACTCTGAAAACTGTTCTGTGGCTGCATATTACCTTTTAAGAACCTGAATTAGGAGTGAAGCTTCATGGTACAAACCTGTAATCCCAGCTGCTCCTGAGGATCAAAAGTTCAAGGCTCTTCTTGGATAATAGA
Seq A exon
ATCTGTTGAACAGGAGCAATCATTTCTAGACTAATTGAAAATCTTGATTCAAAAACTGTACATCTGCCTATCTGTCTACTGTCAAACTGCATTTTTAGTAAATTTTCTTCCTCTTACTCTGGTGGGTCTAAAG
Seq C2 exon
ATGACAGCAGCAACCCGACAAGAAGTCCTCTGCCTCTACCGAAGCATTTTCAGGCTTGCACGGAAATGGCAGGCAGCATCAGGGCAGATGGAAGACACCATCGAAGAAAAACAGTACATACTAAAGGAAGCCAGAACACTGTTCCAGAAAAACAAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030922-3-5,3-4-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
5' UTR





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
NA

							
C2:
PF0534710=Complex1_LYR=PU(68.7=86.8)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000102127





     
                   









    
Main Skipping Isoform:
ENSMUSP00000051616





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000102126, ENSMUSP00000102128
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr16:20926447-20926448 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr25:18826007-18826008 
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr14:15688672-15688931 
LOW PSI
GgaALTA0001039-2/2
(LYRM1)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ACACCTTTACTTCCTAGTGCTCA

				
R: 
GCAAGCCTGAAAATGCTTCGG

				
Band lengths: 
250-383

			

		

	





	
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
  • Neural differentiation time course
  • 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"