Special

MmuINT0101690 @ mm9

Intron Retention

Gene
ENSMUSG00000029267 | Mtf2
Description
metal response element binding transcription factor 2 [Source:MGI Symbol;Acc:MGI:105050]
Coordinates
chr5:108529832-108533144:+
Coord C1 exon
chr5:108529832-108530002
Coord A exon
chr5:108530003-108533038
Coord C2 exon
chr5:108533039-108533144
Length
3036 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
AAATACAGTCTTTGTTTCAGGGA
3' ss Score
5.04
Exon sequences
Seq C1 exon
GTTTATGTCTGGGAAAGAAATAAAGAAGAAGAAGCATTTGTTTGGGTTGCGAATTCGTGTTCCTCCTGTGCCACCAAATGTGGCTTTCAAAGCAGAGAAAGAACCAGAAGGAACATCCCATGAATTTAAAATTAAAGGCAGAAAGGCATCCAAACCTACATCTGACTCAAG
Seq A exon
GTAAAGTCTGCGTCACAGCTCTATTTATCACTGAATGTTTGTGTTATGAGTGGCATGTGACAGTGTGTATGACAGTGTCAGTGGCTCGGTGACCTGCACTAGCCCTACTCCATGGCAGGTAGGTACTGGGGGTAGCCCTACCCCTTTAGACAAGGTAAGGAAGGAAAGGATTTAGTGATTGACTTTTCACACTCAGCACTTTGGTCAGATGCCTGTACCTTCTAAGTGCTGAGGGTTTAATGACAGACAGATTGCCCCTTGTCCTTGATCACATTATAGTGAGGAAAATGTGTAATAAATAATAAAGTAATCGAGTATTCTGATGCCATTTAGAGTTAGTATGTTGTTGGGTCAGTGGGGGGGGGGGGCATTGTACTTCAAAGCGAAGGCTTAAAGGAAGGAGGACTGTGTAAGATGATATTTGAGAGTATTCTAACAGTATGCAGAATAAAGGAGTATAGCACTCCAGGGTGCAGAAGTGGAGGCCATGAAACATAGTCTCATAATAGAAGACTAGGGATTAGAGAGTAGGGAAATTCCTTGGATGGCTCTTGATCACACAGCGACTTGTAGATACGGATACCCTGCCCTCTCTAAACAATGGTAGCCATTTTAATTAGGTAAACAGTTATAATTATCTTTAAAAAATTCTTTGCAAGGTAGTACAGAAAATTAGGAAAAGGTAAAGACTTGGTTTTGTCTGGATGGTGCTTGTGCAGGAGTTGTGGAAGCAGTCGAGTGGAGTGAATAGGGCTGATGTCTCTTTTGGGGCAGAATTGATCAGATTTGCTACTGAATTAAATTTATGAGGGAAAAAGAGGAATAAGTTAACAGATTTCAAATTTTCAGCTTGAACACCTCATAGATGCTGCTTTCCCTACGAAGATAGGGAAGAATGTGATGGTGAGGTGGGTGGGGGACATTCCAGTTCTGTTTTTGAATTGAGATTCTTAGGACACATCTAAATGGTGCTGGGCGGGACTTTGACTTTAGATAGGGAGTGCACAGACAGACAGACAGGTCAGGACAGATGATAAGTCAGGAGAAGGAATACAATGATCTAGTGTAATAAATGAACAAGTAGGTGTCTGAATTTAGAAATTTGGAGTTTTATAAAATGTAATGTATAAAACAAAGGAGATTGAAACAGAATGACCATGATAGTAGAATGAAGTAGAAGGAGTATTGGTGTCATGTAACATGACATAACATTTTGTTATTAGTGACATTGACAAAAGCAGTTTATTTAGAATAAGTAAAGATTGTAATGAGTTGAAGTACGATTGAATCCATACTTTGTGATTTATGTATTAAGAACAATGCTTCTGCATGTCAGGGACCTAACATTTAGAATGATGGTAATCATGAAGGGAAGAAGGCATTAAAGGGTACAAAAGGAATCCTAGTTAGACAAAAGACAGTGAAGAGGAAATGTCAGAGCTGAGCTGTCTTGCTGTAAAGTTAAACAGACCAATGGACAGGAAGGGGAAGATGGGAATGATAGTAAAACTTAACAGCTATTTTAGTAGTTAGGAAATAATTGGAATCTGCTTTTGTGTACCAAGAGTGGCCCAGTGACTAAGCAAAGATGAGTGTAAGTCAAATCTCATTGAGAAATCAAAGGGAAGGTTCTATTGCCTCAGTCTGAGAAAAACTTTTGGTAGCAGGAGAAACACCTTTCTGATGCAGTGGTTTGAAAAAAGCAAGTATATGCTTGTAGAAATTAGAAACTTTAGGTTATTGTTTACTAGTCTATTTTCTCAAAGTGAGAGGTCAGTGAGGCTACTTGAAAGGGCTGTATGCAGAGGGAAATTCTAGCGAGAACAAGAGGAGTAGGGAAATTATTTACAAAACATTGACAATACCATATAGCTATTTTAATAATAAAGTACATACTTAAGGTATTGTTGAGAAAGGAAAAAATACCTCTTTCTGCCATTTTGCGGTTTGATCTAATCCTTTATTCTCAGTTGCCATTATGAAATAAGAAATGAGAATCTCACAAACATCACATTGCTGTGATATTAGGAGTGTACTTGGTCTGTGGCAGCCCTCAGATTATTGAGTACTACCAAGAAGGACTTGTCAGTCTTCAAAGCATCCACTTCCTTGTGGACCCCGTGCATGCTCAGTCCTTTCAAGGCTAAGTGTACTGTTACTTTTCCTCTGTGGTCCTCTTTACATGTTAGGTTATTCATCCTGTTCTTAAGAGTTTTGACCTTTTCTAGGCCTTCCTCTCCCGACTACCCCTTTCTTATCCTCCTATTTTCTAGTCTGCTGTAGTTGTGGTCCTTTTCTTTTTCTTTCATTGTACTTTCCTTATAGCATCCTCATGGCACTTTTTTGTTAGCTTGCTTGTATTTATTTGTGAGTCCTTCAGCAGAAGAAGCCTCTTTGTCCCTTTTATACCTTTCTGTAGCAGCCGCTGTTCATGGAGTGACTGTATTCTGCATGCTCCTGTTTGTCCTTTCGCTCTTCCCTTTTTAGCTATATCCTTGTCTATTCAGCTTTTTACTACTTGGTAGGTACATAAATGTTTTAAGAATGATTTTCTAGTTTGCAGTTAAACCTTAGACCTGTTAAAGGCTCTGTCTGTCAAAGTATGGAAGATTTCTTGTTTCTCCTTGATTCTGTTTCTGATGGTATATTCAAGTGTCCCTTTACATACACGAGTATGTGATATTATGACTGAGACTGTATATTTAAAGAGAAACTGTTGATACTGAAAATTTTAATATAGGTATTTTCACAAGGTTAGCTAATTTTATAGTCATTTTTAGTAGTAAATTCTTGAAACCTTCCCCTCCCAAGTAGTAAGAAATCAATTAAAATTAAAAAAAACCTTTTTAGCTAGTATGGCTTTTTGGTGATTTGTTATTTTTTAAAGTCTTGAAATGATAATCATATATTAGATGTATAGTATGGAGAATACCCTTTTCCTTAAAACATTCAAAAATTGCATTATAATTTAATTAGCTATGATAAACCAGTGTCATTTTTGCTTTTTGCAAGGATTAAATACAGTCTTTGTTTCAG
Seq C2 exon
GGAAGTAAGCAATGGGATAGAAAAAAAAGGAAAGAAAAAATCTGTAGGTCGTCCTCCTGGCCCATATACAAGAAAAATGATTCAAAAAACTGCTGAGCTACCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029267-Mtf2:NM_013827:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.556 A=NA C2=0.931
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000080278





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000121697
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:93129449-93133702 
ALTERNATIVE
HsaINT1023672
(MTF2)
Human
(hg19)
chr1:93595006-93599259 
HsaINT0105983
(MTF2)
Rat
(rn6)
chr14:2661927-2665394 
ALTERNATIVE
RnoINT0095098
(Mtf2)
Cow
(bosTau6)
chr3:50492942-50496962 
LOW PSI
BtaINT0095833
(MTF2)
Chicken
(galGal4)
chr8:12943158-12943842 
ALTERNATIVE
GgaINT0037228
(MTF2)
Chicken
(galGal3)
chr8:14693380-14694064 
ALTERNATIVE
GgaINT0037228
(MTF2)
Zebrafish
(danRer10)
chr2:10827307-10827453 
ALTERNATIVE
DreINT0098424
(mtf2)
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"