Special

MmuINT0101991 @ mm9

Intron Retention

Gene
ENSMUSG00000021987 | Mtmr6
Description
myotubularin related protein 6 [Source:MGI Symbol;Acc:MGI:2145637]
Coordinates
chr14:60917752-60921207:+
Coord C1 exon
chr14:60917752-60917878
Coord A exon
chr14:60917879-60919109
Coord C2 exon
chr14:60919110-60921207
Length
1231 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
AACGTTTTGTTTTGCTTTAGAAA
3' ss Score
9.06
Exon sequences
Seq C1 exon
GTTTTGGAGAAACATGTACCACCAGTTTGATCGGACGCTCCATCCTCGGCAGTCTGTGCTGAGCATAATTATGAATATGAATGAGCAAAGCAAGCAGTTAGAGGAAGACATTAAAGACCTCGAGGCT
Seq A exon
GTGAGTATTCTGAGTTGTCTAATAAAGCATATTTGTTTAATTTACCATGTGACAGTGTCTTCCATTTTGGGTTTTTTGATTACAGATGAAGAGAATTTATTGGGCATTTCCTTTTTGTTTGTTGAGAATAAACTTCCAAATTTTGCTCATTTTTCTCTTGGCCTGTTTGTTTTTTTTTTTTTTTTTAATGTCAAGGTTCCTTAAATACTAGATACTAGATACTAATTCTCTGTTGGGGTTATTGCAAATAGCTTTGGCTTATTCTGATTTCTACATCTTACTGTTGTTATCTTTATGCTTTGCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTACATATTATGTGTACATATATACACACACACACTTTTTTAAAAATGCTAGACAGTTCTTTTTTGTTCAGAGAACAGTCCTGTCTGCCTCAGAGATGGATGTTTTTCATTGTCTCTTAGGTAAGAGAGTGGTGACTGCTGGGGAAAACTAGAGGGCACATATTAGTGTTCAAGAAAGGGAGGGCAAGATAGGCAGCAAGGGACAGTTGTCTGGAGTTGATTTGGAGAGCTTGATGCTCTGCTATGGGACACTTTAAATATTACGTTAAAAAAATGTGCTACCTTCCAAAGGCTGATCTGTTCCCTTGGCAACCCGTCGTGAGGGATGCCTGTGAGAAGCTCGTCAGGGTCGGTGGGACCTTTAGCTGAGTTAGGTGTGATTGCTGTGTTACAGTGAATTCAGTCAGGTTGAGCATATCCTCTGTGTCCTTGTCCTGATGAAATGATTACTTGTTAAAGTTTCTAAGGAATATGTGTGTTTCTGGCATGTGCAGACCTAGTGGCCTATACAGTCAAATCTGGTTGAAACAATTGACAAACGTAAACACTTAATGAAGCATTTTCTTTGATAAATTTCAAGCTCTTGAGATTTCCTTTTTTTGAGGGGCTGGGGTTCGAGACAGTGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCAGGCTGACCTTGAACTCAGAAATCCGCCTGCCTCTGTCTCCCAAGTGCTGGGATTAAAGGCGTGTACCACCGCTGCCCGGCTTGCTCTTGGGATTTTTAGTTATTGAGTTCATAATTGTGTATCATACACAAGGGGAACACTTGTAAAAGCATATTTTCTTCACTCCATGTAGATCGATCACCTGTTAGCTGTAGTTACTAATGTTTTTTCAACGTTTTGTTTTGCTTTAG
Seq C2 exon
AAAATTAAGCAATGCAAAAATGGCATCCTAACGAAGGAGTTGCTGCATGCTGTCCACCCTGAATCACCTGCCCTGAAAACCTCGCTGTGTCTCAAAGAGCCGAGTCTGCTTCCCGTGAAGGACACACTCCGAGCTATAGAGGGCAGCAGCCCAGCAGATAATCGCTACTGTGACTATGCCGAGGAATTTTCTAAGTCGGAGCCTACCGTGGTCAGCTTGGAGTACGGGGTGGCCAGAATGACTTGTTAGCCTCCTTCCGTGATCCCTGGATGACTGTAGTGTAAGAAATGTATAGTTGTGAGGATGGTCTGTACACATGGGCAGGAGGGGTTGTTGAGTGACTTTGGGGCTTAGCAGTAAGTGAGAAAGTAGGTAGCTGAGAAAAGGATCATAGCAACTCTTGAGAGGAGTGAGTCAGCTAAGTGCCATTTGTAACAAGAACATACTCATTTCTGTAGGAAGTGAGTGCTAGTGTGTGTATGTACTGGAAAGGGGTTACACAGGACTGGTGAGCTGACAGTCTGTTGATTCAGATGTTAATTCCAGCCACGCTCAGTAGCTTTCCTCTAACTCTGAGAAAACAGACCTGACAACCTGAACCCTCAGTGACTGATGTGGCATGTGCTTTCAGTTCTGGAGCTGTGTGACTGTGGATTTTGCAGTCACAAAAATCCAAATATATAGTCAAAAATATAGTGACGTTTTAACATTAAAGTGCCATGAAAAGTACTTATGGGACAGCCTTAAAGTAGACTCTCAGTTTATTCTGTGGGTTTTATAGCCGAGGACAGGATGTTTGATCTCTCCTTTAATCAGCCTTATTTCATATGAAGAACTAACTGCACTCTGATTACTTGGGGGCCGCACACTGCAGTGCTCCACCATGGAAAGTTGTAGACATACTCTGCTAGTTTGTAATTAGCCAGCTCCACCCGTATTTAAAATCAGTGTTACCGAAGGCTTTGTTCTCGTTGTCATTTGTTCCAAGCTGCAGCTGACAGTTCATTATTCACAGCTTAGAGGACTCATTTCTTAGGCTAGTATAAGCACATTTGGCATTTACTTTCGGCTTACTGCAGTCTATTAATTCTTACTCTGTGGTTGGCTTTAATCCTTTGATAACTGTACATTTAAAGTGGCAAAGCTCTAAAGCGTTCTGAGTACTAAATACATTTTTAACTTGACTGTAGCTGCCTATAAACTTTCAGGTAAAGGAAAAAGGGAAGTGCGGGTAGTGGAGATTTTGCTTGGTTACGAATTCTAAAGCAATCATTTTTGTGTGGAGCATATTTCCTTACTCTTAATATAGGAGGGGCAGAGAAGGGAGCACTGGGGGAGCCAGCTAATGTCCAACAGAAGCAGCTTTGACGCAGGAAAAGGTTTATTTTGCTTTATAGGCTCATTGTTATTCTGTGCACTGGGGCATACATATCTTTTCTAAAAAATCACTTACAACTGTCAGTATTACCAGCTGGCTCTCAAAGTTTAATATCATTGATGGTGTGTGAGGTACAGTTCAGGGGCACTACAAAATCTGTGTACATTGTCTTATATACCTCCTGACCACACCTATATCTGTAGTATTTCTTGTGTTAGTTTTGAACATATGTATCTTTTTTTTTTTTTTGGGAAAAAAAAGGAAAGCTTTATCGTATATGATTTTATCTAGTCCTTATTTTTCCAATTCACTTCTGTAAGACCTTATGTAATAAAAACACTGCATTTTAAAAAGTAACAGAAATATACTAAAAATTACAATGTATAATGAACAGTGTTTAGACATTGAGAAAGGAAACTTAATCTCTGTGTCCACAACAGGAGGGTTTTGTGCCTTGGTTCCAGTCAAGTTGTGGTTTTAGACTTCTGTGGCAGACTTCCTAGTCATCTTCTGGGTTCCTTATGCTAATTTTCAACTTCACATGTATATATGTGTTTACATGCTCACACAGAAAACATCCTGAGTGACGTACAGGACATACGTTGGCAAAAGTCTGTGTAAATGTCTCATAAAATTAGATTTATGTTCATTGTGTTTTGGGATGTATAGCATGTAAATTATTTCATGTATTATTTAAAGGCAATTAAATGTTCATGCTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021987-Mtmr6:NM_144843:13
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=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF060089=Laminin_I=FE(40.8=100),PF102434=MIP-T3=FE(70.0=100)

							
A:
NA

							
C2:
PF060089=Laminin_I=PD(26.2=32.5),PF102434=MIP-T3=PD(23.3=16.9)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000022563f1139A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000022563
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr13:25249493-25251648 
ALTERNATIVE
HsaINT0106294
(MTMR6)
Human
(hg19)
chr13:25823631-25825786 
LOW PSI
HsaINT0106294
(MTMR6)
Rat
(rn6)
chr15:40594119-40595305 
LOW PSI
RnoINT0095397
(Mtmr6)
Cow
(bosTau6)
chr12:34194254-34195453 
ALTERNATIVE
BtaINT0096132
(MTMR6)
Chicken
(galGal4)
chr1:176359730-176361722 
ALTERNATIVE
GgaINT0115701
(MTMR6)
Chicken
(galGal3)
chr1:181407422-181409414 
LOW PSI
GgaINT0115701
(MTMR6)
Zebrafish
(danRer10)
chr14:30070605-30070787 
LOW PSI
DreINT0098744
(mtmr7a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CAGTTTGATCGGACGCTCCAT

				
R: 
AACAAGTCATTCTGGCCACCC

				
Band lengths: 
352-1583

			

		

	





	
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"