Special

MmuINT0046100 @ mm9

Intron Retention

Gene
ENSMUSG00000029190 | D5Ertd579e
Description
DNA segment, Chr 5, ERATO Doi 579, expressed [Source:MGI Symbol;Acc:MGI:1261849]
Coordinates
chr5:36947160-36950695:-
Coord C1 exon
chr5:36950587-36950695
Coord A exon
chr5:36947258-36950586
Coord C2 exon
chr5:36947160-36947257
Length
3329 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CTCCATTCAAAATGGTTAAGAAT
3' ss Score
-1.09
Exon sequences
Seq C1 exon
TTTCCTGTACTGAACACTGATGTGCAAGAAGTAACAAGAAATCAAGAAAAGCAGAGCTGGTGGGAAAAAGCTTTGTACTCTCCCCTTTTCCCCACGTCAGAGTGTGAAG
Seq A exon
GTAAGGAGACTGTGCCATTATTCTGTTCACATTTCTAGTTCACCGAGAGCAACGGGTTCTTTAGGTATGAATACAGTCCAGAAAACACCAAAAAAGTTCCTATGGCCAGCACTTTGTAAGACCCTAGGGACACCTAGGTGATTGCAAATTGGACCCTGCTCTTAAACCTTGATATATATGATATCTTGATGAGATATGTATAACCATCTTGACCATAGAGAAGGGAGTCCTCAAGGCAATCTTTGTGCAAAGAAGGTCACAGGGTGTGAGGCAGGTTAGAAGAACCATGTCCTATCAGGCTTAGCTATTTTGAAGGTGAACCAGAAAGTCTGATGAGAAAGAGCCTACATGTATGAGAACCTGGCTTCTGGCTCCAGTTTGGTGTGCATTGAGGGATGGCTGTGGGAAAGACTTGTTTGCAGGGTGTTCAGGTCAGATGTGTGCTGGAAGACTTGTAGCAACAACAGAGACAAAATTTAAGCTGGAGAGTTAGGTGATGGGAATAGGATGGGGAGATTCTGTAGTGGTCGCACCTGCCCTGAGCCTGCAGTGTGAGCAGTAGGAAGGAGTTAGGCTCTAGAGCAGTGGTTCTCAGACTGAGTTAGGAAGTACAAGGCAATCATTTTATGGTTGGGGTCACCACAACGTGAGGAACCGTTAAAGGGTGGCAGCATTAGGAAGGCTGAGAACCATTGAGCTAGAGAGAAGGTGAGGAAGATGTCAGGGCCATGGAGTATCCACCCAACCTCCTGAGTGATCCATCTAGAAGCTGGATGAGTTTCAGACAGGTGCAGCTAACAGTCCAAGTCAGACCCCCATAGCTGTGCCTCAGAAGCTCCTCTGCATAAAGAGTGAGGACAGGAAGAGGTCTATCACCATGTAGCAAAGATGCTACTTCCTTGGGGATGATTTTTAGAAGCACTGCCTCAGTTTGGTTCACTGTGTCATTCGTTAGTAGGAGCCAGTTCCAGTTCAGCTCTGCATCTTGGATATGCAGTCTGTTGTTGGCAGGAGCCAGTGAATGGATATAATGCTTTTGTATGTGTATGCGAAATGCTGCATAGGGAAGCTTGGTGGAGACGAAATGGTAGCCAGCCTTCTGAGTGACAGCTGTGAGTTTAATCCTTGGGAAGCTCCCTAAACAGTGACAGTATGAAGTACTCTTTCTGTTGCCTCACATGGAGGCTATGCAGGAGGATAACTAGCTGTTCACCCCCTCGAAAGGATAGGCATTCCTGAAGCTTCTAGTATTAGAAATGGTTAGTAATCAACATGTGCTGCTCTGGACACTGGCTAACTAGAACTCTGAGTATCCCACGGGAGAAAGACTGTCTCCTTGTTGAGTTGGCAGAGGAGACAGGGTGTGTCCTGCTGAGAACCCTGCCCTGTGTACTTCTGTGTATATGTGTCTCTGATCAAAGTGCTGCTCTGGGGATGTATAAACACACTGGCTGCCCGTCCTGGATGTGTGTCTTCTCAGTGGGCCTGGAGGCAGAGCACAGACCACAGCAGCTGGGATTGGAGGAGCAGTATGGGGCGGGGCACAGGTAGCGTGCTGAGGAGTGTGGTAGAGACTGCAGAGGGCTTGGTGGTGTTCTCCAGTGCTTACTCTGGCTGTGGTGTGCTTGGAAGCTTAGTTGCTATTGGCATGCATTGTCCAGTCTCTGTAGAGTGAGCCCTTTGGGGAGCTGCACAGACTGTGATGGGGGAGCAAGGCTAGCTGGAGCCTTGTGCCTCTGTGGGTAACTGCTGGGTTTCGTTGCTCTGTTGTTGTCTGCATTTGTAAAAGGAAGCCATCCCTATTGGGATGATAGTGAGGAATAAAGATGCCTCTTCAGCAGGCAAGGTGCCTGTAACTGTAACCCACATGCAGTGATTGCTCAACAAACTATAGCTGTCACTGGGAGCATTAATAAGCCCATGGGATGAGCTCAGTATGATTCTTAGCCAAACCCCTGAGTGGAGGTGTGAAGATGAACATAGCATTTCTCAACCAGAAAAGAGCCACCTTCCCTTGCACAGTCTCTCTTCGGGCCCTGCTGTGTGTATGGAGTGAATGGGATGAAATGAGGCCACTCGAGCTCAGTGGCCTCCCAGCCGCCCAGAACCCATGTTCCAGTTGGTGGCTATAGAAAATGTTGCTGTACCTGTCCACTTCTCACATAGCACCTCTTTGAAGAGAATGATGTTGCTTCTGTTTTAAAGAGGTTGGGTATGTGGCTTGGAGAGTCATGTCACAAGTTAGAACCTGGCATCTATTATGGCTCTTGTCACTCCAAGCCAGGATTATTCAAGTAATGCCCAGGACTGATAGGTTATGAAGAATATCCACATGGCAAGCAAAGTCTGCACTTGGTGCCCAAGAGTATAGCACTCACTAAGGCTGGCCTTGTCTTCTGTGACTCGGGCACATGGGAGCCGGAGCACCCATTGACACCTGTGGTATAACACTATCGAGCAGAGATGCTAAAGGATCAGCATTTCTGAGCTCTGTCGGAGCCAGGTGTGAACTAGCTGGTTGGAGTCTCCATCCTTCTCTCTGACTCCATCACAGCTATCTTCTTCTTGGGTCAGTGGACAAGAGGCTAGGCTAAACCAAGACTAGGTTCAGCACAGGGGCTGTGCTCAGGAGTCACCTGGAAACTTCTCAGAAGGACTGATGGTCAATCTCCTGAGGCATAGGCTTCTCCAAGTTCCTTAGGTGGCTAAATATTATAGTGCATAGATAAAACACAGTTGAAGCTGCTGCTGATTGGATTCCTCCAACTCCAGTCCACATTGCCTTCTCATTCTGTGAGCCTTGGCTAACTGGACCATGAGCCTCCATGTGCACAGGTGTTAACAGGCCCGTGGGCATGCTGTTGAGTTAGAACAGGCCAGCTAGTGACCTGCTTTGCTTTCTCATTGGGCTGCCTGTCTGGAACCTCTGCTGTTCCATGAGCATATCTGTGGTGCATTGACCGTCACCCTCCACTTGACACTCATTCTTGAGAGCATGGGTCTTATAGTCTTTTCCCCTGTGGCCCAGGACCATTACATCATAGATCTGTGTAAATATTTGTTGAATTGTTGAGACAATGTTTTACAGTAGAGTATGCTTATGCTGGCCTGGTTTTTATTATTCATTACATACTTGTGGCTGAAGTTTTCAGCTAGTGTCATGTTTTCTCATACACTTCAGACTGGCTGTGCTTTCAATGACAACCTAAACCTCCAGAGGGTGGGGAGGCCTAGCTTTTCAGTGAGGTGAAACAAGGGTGTGTGTTTCAACTGTCTTAATTGAATTTCCCCCTTTCCCTCTTTTCCCTTCTCCATTCAAAATGGTTAAG
Seq C2 exon
AATGTTATACAAATGCCAAGGGAGAGAATGGTATAGAAGAATGTCCAGATGCTAAAGAGACACCCAGTCGTGAAGAGCGTCTGTTAGATTTTAATAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029190-D5Ertd579e:NM_001081232:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.270 A=NA C2=0.394
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF153761=DUF4603=PD(2.7=91.9)

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000031091f2540A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000031091, ENSMUSP00000084825, ENSMUSP00000116548
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr4:6871683-6876659 
LOW PSI
HsaINT0085672
(KIAA0232)
Human
(hg19)
chr4:6873410-6878386 
LOW PSI
HsaINT0085672
(KIAA0232)
Rat
(rn6)
chr14:79318482-79321763 
ALTERNATIVE
RnoINT0083291
(LOC680039)
Cow
(bosTau6)
chr6:118171241-118175588 
ALTERNATIVE
BtaINT0080663
(KIAA0232)
Chicken
(galGal4)
chr4:79431157-79433141 
ALTERNATIVE
GgaINT0068425
(KIAA0232)
Chicken
(galGal3)
chr4:82823151-82825135 
ALTERNATIVE
GgaINT0068425
(KIAA0232)
Zebrafish
(danRer10)
chr7:39403446-39404153 
LOW PSI
DreINT0179414
(zgc:158564)
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"