Special

MmuINT0101675 @ mm9

Intron Retention

Gene
ENSMUSG00000026273 | Mterfd2
Description
MTERF domain containing 2 [Source:MGI Symbol;Acc:MGI:1918355]
Coordinates
chr1:95195788-95199479:-
Coord C1 exon
chr1:95199295-95199479
Coord A exon
chr1:95198373-95199294
Coord C2 exon
chr1:95195788-95198372
Length
922 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
AACATGTTTGTATCTTTCAGTAT
3' ss Score
8.05
Exon sequences
Seq C1 exon
GGAAACTGAAGCGGGTGCTGTCCGTTTGCCCTGAGGTTTTCACCATGCATCAGCGGGACATTGACCGAGTTGTGAAGGTCCTCAGGGAGAAGTGCTTGTTCACGGCACAGCACATCACAGACGTTCTGCACAGATGCCCCACTGTTTTGCAGGAGGACCCCAACGAGCTAGAATACAAATTCCAG
Seq A exon
GTGAGAGTAAGTGACTAGGCCGATGATGGCAGAGTGTTCAGGTTTTTAAAGCTGAATAGGGTCTGAAGCCTCTGAGTAAAACACCTCAGTTTTCTCCTCTCCAAAGCAAACCTGTTGTTTAGCTCTGCCCCATTCCAGGTCCAAGTAGGTAAACTTTACAACCCTTGGGGCATCTTTTTGTATAGGAGATTTAGAAATTGTGACAGTTGCCCTAAAAGTTTAGTGACAGATAGGTCATAAGCACTTGTGCATAGCTGTGATGGCAGTGCGGGCACTCCTTTAATCTTAGCACTCCAGAGGCAGAGGCAGGCGGATCTCTGAGTTTGAGGCCAGCATGGTCTACACAGTGAGTTCCAGGACAGCAAAGGCTATGTAGAGACCATGTCTCTAAAAACCAACCAAACAAGCAAACAAAGCTGGTATGAGGACCTGAGTCCAGATCCCCAGAACCCACCTAAGCTGGATGCCCAGTGCCCCAGCACCCCTGTGGGGAGATGGGAGGTAGAGTCAGGGCGTCCTTGGAGGCTTGTGGGCCAGCTAGCCTGGCCTCTGAGCTCTGAAGCACTGCTGGGACATACTCAGATAAAACAAGCTGCATGCTCACACATGTGTTTAAAGGTTCCTAGGTATCTTAGGATTTCTTTGGGTCTGATTTTTCCTACACTCATGATTTTTGTTGCCCTATTTAAAGAAAAGTATATCCCTGTATGCCCCTTTGTTTTCTGATGCATTTTTCTCAGCTTGAATTTGGAAATGCTTTGAAAACTTGAGATTTCATAAAAGTGTTGGTATTATACTACAGTGGCTATTCTACCATTTCTAATTAGGCAACTAATGACTTTGGACTAAAGTTTGTTTTGAGTTGGAATGACAGGCTTCAGGTTTCTCTACATGGATTCCTGAACATGTTTGTATCTTTCAG
Seq C2 exon
TATGCATATTTCAGGATGGGACTCACACATCTAGACATAGTCAGGACGAATTTCTTACAGTATTCAATAACCAAGATCAAGCAGAGACACATTTACCTGGAGCGCCTTGGACGGTACCAGACCCCTGATAAGAAGGGGCAGACACAGATCCCTAATCCCTCACTGAGGAACATTCTCAGAGTTTCTGAAGCTGAGTTTTTGGCCAGGACAGCCTGTTCCTCTGTCGAGGAGTTTCAAGTTTTTAAAAAACTCTTGGATCAAGAGGAGGAGGAGGAGTCTGAGAGCCATGCATCTGAGGAGGAAGAGGAAGAGGAGGAAGAGGAGGAGCTACTGTGACACAGCACTGGGGTGTCAGAGGTCATTCTCATATTCTCGAAGTGCTGGGGACCTTCACCTGGATCTTCTCAAGCACTTTTGATCCCAACACTGGTATTTTGATGGGGGAAAAAACCAACCTGTAATGATCCACTGGAGATACAGGTAGATAAACCAAACCAAATGAGGGGTGCTTTGTTGTGGGTTCTTTGGGAGGCCCTACTCCATCCTAAATAAAGGACTCGGCTGTCAAAATCCAGGGGGTGCAACCCTTCCAGGTTGGAGTCTTTTTCTCTGTTAAAATAAGTTGTGCTAGTTCCAAAACCATGTGGAGAGAGAGGTGCCTTTCGGCTCAGGAGTACTTTGTATGTCCAGGTAGTAGTAAAGATGAAGTCATGAAATTGAAACATGAGGGTTAGTATGTCATAGCACTTTATTTAATGAAAACAAGTAGCAGGTTTCCCACACAATAGGCAGCTTCTAAATCTGACACCATTTCCCAGCCTTCTGACGTGTTGAGTGTACAGCAGAGTGAGAGGCAGTTGGTTACGTTAGTAACATGTCCTTTAGTCACACGGTTGTCAGACTAGCAAAATGCTTCTCTGTCAGTTGCTGACCCTTCCTGCTTGGGCAAGTTGGCCTTCATGTTGGTTCCTGGCTGGTTGCCACTTCAAGGCCTCCTATCTTTCTGGCTCTGTAGACTGTGCTAAGAGTGAGCTGCTCAGAGACCAGCACTGGGGAGCACTGGGCAGTGTGGAGTGTGTGCAGTGGAGCCATGTGATGTACTGGGACTAGGATGAGGTGAGCTGGAGGAGAGGCCTGATTTGGTGGAGCTCAGGCTTAGAGGGTCAGAGAACTGAGGCCTCTTGGAAAGTTGTCTGTGCCTCTTCCTCAGGAAACTGCACAGGGTGATGCAGAAAGCTTTTTGGTTATAGGATCAAAGTCAGGAGTGCTTGGTAGTATTTTTCCCCCATTTGGTGACATTTAACAGTCACACGAAACCCAATGTGGGCCTTGTGTTTAGACTGAATCCAGTGCTTACGTGAGGATGACCTTAATCCTCCAGACATCTGACAATCTTTGGGGATTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCATGGCCTCAGGATCTTGTGGTCAGAGCCAGGGATGCTGTAAAATATTGTACATTGCACCGCATAAGGAATAATTAGGCCCACAAAGCAATGCCAAAGCTGAGAAACTGCTCAAAGACCTGGCCCACAAAAGTACTGTGACTACAGCTAATGTGTGTTGTAAATGGACCTGATGTATCATTTCTGTCTAAAGCAGAGATACTGCTGGATCTGAGGTGCATTTTGTGAGGAATCAGCACCAAGGTGAGGCGGCTCTTGACTTACCTGGAACCTGACTGCAAAGAGGAGGGTGTTTACAAAGAAAAGCAATCATTCCAAGATTCCTCCCCCCACCCCTACCCTCCACACACACAGTTCTCACTATGGCAGGTATGTGAGGCAAGCTCATTCCTGGCAAGGGCGTGTCCTTGCCTGTTGGACTCTCCACAGAAAGCAGGACGTAGCAAGCCATCTTCTCTACCCCACATCCCATAGGCAGTAGAGGGGAACGAATGCCTTCTGCCTGTTCTTGGCTGTGGACAAAGCTGTTTGAGAACAATGATCCATTCTTTGCTGCTTACTCTTCCCATTTTGTGGTCTTTTTGTGATCGACACTCTCCTCCCTGAATGTAGGGTGTTTGGCCTTGGACTCATCAGAACGGAATAGAATCCTAACTGTGAGCTCAATTAGGTAATCTACTCATCTTCAGTTTTGATTAGCAAATGGTGAGCCCAACAACTCATAATTACTTCAGTTGGACACAAAAATAAATCTCCACCTTGTCTGTTTGCTGATTCCACTATGACATTTCCCAAGTGGACGCTGACTGTTTTGAGGGATTTAATTATTCTGTGTAAGAAAGCAGAGACAGCATGTTTGGAATGATGTATACTAATTCCTCAGCACAGGCAAGTCTTTCTCCACTCCAGTTGGAATGATTGCCCGACAGCGCCACACAGCAGGCTGGCTCCAACTGGAGATGGGAATGTGGCAGCATCGGCTTGGGGGTGAGAGTCCTGAGGTATAGTACGAAGATCCCATCTACGTTCCCAGAGGTGCTGCTTGATCTTGCTGTTCACTGTTAACACTGTAGCTTACTCGGTCTCCAGATCTCTAGTGGGTATCTAAGATACAGTAGTGAGTTTTTGATGTGACTGACCCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026273-Mterfd2:NM_178051:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.212
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF025369=mTERF=FE(26.0=100)

							
A:
NA

							
C2:
PF025369=mTERF=PD(10.6=15.9)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000108564





     
                   









    
Main Skipping Isoform:
ENSMUSP00000027492





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000108566
  



Associated events






Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr2:242035854-242036657 
HsaINT0105955
(MTERFD2)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr3:120810576-120811234 
ALTERNATIVE
BtaINT0095820
(MTERFD2)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr2:44701431-44703904 
LOW PSI
DreINT0014767
(MTERF4)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CATGCATCAGCGGGACATTGA

				
R: 
GTCCTGGCCAAAAACTCAGCT

				
Band lengths: 
351-1273

			

		

	





	
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"