Special

MmuINT0058882 @ mm9

Intron Retention

Gene
ENSMUSG00000030929 | Eri2
Description
exoribonuclease 2 [Source:MGI Symbol;Acc:MGI:1918401]
Coordinates
chr7:126931248-126933904:-
Coord C1 exon
chr7:126933748-126933904
Coord A exon
chr7:126931349-126933747
Coord C2 exon
chr7:126931248-126931348
Length
2399 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TTTTAATATCCATAATGCAGACT
3' ss Score
4.25
Exon sequences
Seq C1 exon
GTTCAAGTCGATGAAGGAGTCCCCCTGAAGATTTGCTTGTCCCAGTTCTGTAAATGGATCCATAAGCTGCAGCAGCAGCAGACGATCAGCTTTGCTGCTGGGGATTCAGAGCCTTCTACTTCTGAAGTGAAACTGTGTGCTTTTGTTACATGGTCAG
Seq A exon
GTAAAGCATGACTGATGCCTGTCAATCACACTGGGTGGTACTGGGGCCTAGGGGGTTCCTGAACAGGCACAGTGCTTGTTGCAGAATCACGAGGACCAGAGCTGGCATCCTCAGAACCCGTGTAAAAGCCACATGGGCATAGTGGTCCCTCTGTACTCCAAGTACACTAGGTGGAGACACGGACTCCCAAGAGCAGGCTGGCTAGCCAAACTAGCTAAGTCAGCAAGTCCTAGGCTCAGCGAGGAACTAGTCTCAGTAGATATTGGCTTCTAATGTCAGTCTTGGGCTTCCACATGTATGTCCACATGTCCACATATACGTACACGTGCATGTGCACACACACCTTCACCCCCACACTATAAATATGTGGCACATACATACCACACATACATATGCCCCACCCACCAAAAAACCAATAGAGTAGCACTGCCTCTATTTAGTGCTTTATTTCTAGTTTCATTCTTGTTAACCTAGAATTATGTTTGTTAACCTAATTGACCAGAAAGAAAATGAAGGGCCACACAGATCCTAACCAAGAAAAGCCAGTTCACTTTAAAAAAAAAATAAATAAATAATAATAATGATTCTCCAGAACTGGGAACGAGCATCAGTTGAAGGCAGGCTCTGCAAAGGCGGGGTGCAGAGCAGAGAAGGGAAGGGCACAGGACAGTCCTTCCCTTCATCAGAGGTGGGACAGAGACGAAGCACATCTCACTATGGCTTTTCCGACTCTGACAGCTTTTGTCTCATTCCAGCTTCTTATACGCATAAAATCATCTCCTCAGAAACTGTATTCATTGATTATATAGCTTTTCAAAGTACATTTTCCTCTAAGGTCTTCCTTGATTACACAAGATTATTAAGAGGAACAAAGCGATCAAACAGCAACTTTATGAAAACTAATGATTCACATTATGCTAAAATCAACTTTCTTTCAACTCAGTATCTTCCTTAAGATCAGTGTCATGAAGCCTTGCAGTTGCAGAAATGCCCGGCAGGGTGGCTCCCTTGGGATTTGATTCTGTTTCAGTTTGGCATAAGGTTAATATATCAAAAGCTACTTCATCTACCTTTTATATCAACTTGGCTCTCTACAAAAGCTCAATCTCTAACCCTCACTTAATTCTTCCTTTCCTTCCACTATATTTCTTTTATATTTGACGTAAGACCATTGCCCTTTTTCTTTGATTCTTAAAGAATTGTCCATCCCCTTTGCTTCAGCAAGGGCAGTCTATCAGTGAAGTTCTGGTCTGACAAGTCTGCTCAGAAGCAGGCAGTTCCCTGAGCCAGGATGCCTTCCTCTGTGTCTGACTTGAACCCTCGTTTCAATATGATTCCTATCTTTATTACACTCCTGTAAAGAACAGAAGAATACCAGGGTTCCTAAAACTGCTTGCTTTTGCCTTTTGGGAGGTACCATGTGCATGATCAGAATCTCTTCCTATTCATACAATTTCCTTGTTTCTAAAGTTGAACATTAAAAACCCAGCAATTCAATTATAGCTTGTCAGCTTCTAAAATTTCCCTAAGTTTTTCTTCTTTAATAATTCCTCTATCTCTTGCTTACTAACAATACTCATTAAAGATCTAAATATTTATTTAAGTAATAAGTTCTTGGAAAAGACTCAATTTTCTGCATAACATTTTTTTCCAGGGAATTTTCATTAATTTCATTCTTGTTTGCACTAGCTTTTTTTTTTTTTACAATTTCAGCACTAGCTTTCAGAGAGAGGCCTTTAACAGTAAGAGATGCAAGTTTAGCAAAAGATGTGTAGCGACTATCCACCAAGGGCAGTGAAGGCTCAGTCCAGGTCATCCAAGCACCTGAACTTCGTCCAAAAGCCTTCAGGATGCTTGGCATCGCCACTCCAGACCCATAAGGAGCCCTGTTTCAAAATAAGATGGGTGGCACCTGAGTAATAACACCTGAAGCTGTCCTCTTCCCTACACACCGACCACATGCACCAACACACATGCACATGCACACATATGTACCCCCCCCTACTTGTACATACCCAGAAGATAGCATTTTGAAACAGTCATCAACATAATTTCTTTTTTGGTTTTTTTTGTTTTTTTTTCGAGACAGGGTTTCTCTGTGTATCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCGAGTGCTGGGATAAAAGGCGTGCGCCACCACGCCCGGCTCAACGTAATTTCTTAATGGTAAGTTCTATAAGATGTAAGATAAGATAAAATACACTACCACTAACTAGTTACTAGTGCAGAAAATAAATCTTACTGTTTTGTCGTATCTTGTTTTGTGTATTTTATTTGTGAATGGAAACACACTGACACCACTGACTCTTATTTTAATATCCATAATGCAG
Seq C2 exon
ACTGGGACTTGGGCGTTTGCCTAGAGTATGAGTGTAGAAGAAAGCAGCTGTTAAAACCTGTGTTCTTAAACTCTTGGATTGATCTCAGAGCAACTTACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030929-Eri2:NM_027698:5
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=0.042
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0092919=RNase_T=PD(42.5=90.6)

							
A:
NA

							
C2:
PF0092919=RNase_T=FE(17.5=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000120547





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000068633, ENSMUSP00000102133, ENSMUSP00000117940, ENSMUSP00000131211
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr16:20800403-20801202 
ALTERNATIVE
HsaINT0057796
(ERI2)
Human
(hg19)
chr16:20811725-20812524 
ALTERNATIVE
HsaINT0057796
(ERI2)
Rat
(rn6)
chr1:189544121-189546500 
ALTERNATIVE
RnoINT0056308
(Eri2)
Cow
(bosTau6)
chr25:18665737-18667111 
LOW PSI
BtaINT0057681
(ERI2)
Chicken
(galGal4)
chr14:14926162-14926460 
ALTERNATIVE
GgaINT1012446
(ERI2)
Chicken
(galGal3)
chr14:15640240-15640538 
GgaINT0012565
(ERI2)
Zebrafish
(danRer10)
No conservation detected
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"