Special

MmuINT0164408 @ mm9

Intron Retention

Gene
ENSMUSG00000031481 | Tpte
Description
transmembrane phosphatase with tensin homology [Source:MGI Symbol;Acc:MGI:2446460]
Coordinates
chr8:23456493-23459859:+
Coord C1 exon
chr8:23456493-23456581
Coord A exon
chr8:23456582-23459797
Coord C2 exon
chr8:23459798-23459859
Length
3216 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
GACCTTTTTTTTTTTTCTAGGAA
3' ss Score
11.81
Exon sequences
Seq C1 exon
GGAAATGTTGTTGTTCTCCAAGGAAGTAAATAATTGGATGGCTCAAGATCCTGAAAATGTTGTCGCGATTCACTGTAAGGGAGGAAAAG
Seq A exon
GTAACACCACTTTTTTTCTTTTTCTTTTTTTCTCTTTTTTTTTATTAGGTATTTTCCTCGTTTACATTTCACTTTTTTTCTTTTATTTTCCACTTTGTTAAGAAATTGGAAAGAAATACTGATGTGTGCGAACACAGGCGGTTAATATTAATCATTAACACTTTAAAATACTAGTTTTATTTTTTAGATATTTTCTTTATTTACATTTCAAATGTTATCCCCTTTCCTAATTTCCCTTCCAAAAATCCCCTCCCCACCTCTCCCCTTCCCCTGCTCTCCAACCCACCCATTCCCATTCCTGGTCCTGGCATTCCTCTATACTGGGGCATAGAGCCTTCACAGGACCAAGGGCCTCTCCTCCCATTGATGACCGACCAGGTCATCCTCTGCTACATATATAGCTAGAGCCACAAGTTCCTCCATGTGTTTTCTTTGATTGGTGGTATAGTTCCAAGGAGCTCTGAGGGTACAGGTTAGTTCATATTGATGTTCCTGCTATGAGGCTTTAGTCTCCTTCAGCTCCTTCAGTATTTCTCTGGCTCCTTTATTGGGGACCTTATGCTCCATCCAATGGATGACTGTGAGCATCCACTTCTGTATTTTCCAGGCACTGGCAGAGCCTCACAGGAGACAGCTATATCAGGCTTCTGTCAGCAGGTTCTTGTTGGCATCTGCCTAGTGTCTGCGTTTGGTGGTTGTTTATGGGATGGATCCCCAAGTGGGGCAGTCTCTGGATGGTCATTCCTTCAGGCTCTACTCTGAACTTTGTCTCTGTAACTCCTTCCATGGGTATTTTGTTCCCCCTTCTAAGAAGGAATGAAGTATCCACACTTTGGTCTTCCTTCTTCTTGAGTTTCATGTATTTTGCAAATTGTATCTTGGGTATTCTAAGATACTGGGCTAATATCCACTCATCAGTGAGTGCATATCATGTGTGTTCTTTTGTGATTGGGTTACCTCACTCAGGATGATATCCTCCAGATCCACCCATTTGCCTAAGAATTTCATAAATCCATTGCTTTTAATAGCTGAGTAGTACTCCATTGTGTAAATGTACCACATTTTCTGTTTCCATTCTTCTGTTGAGGGACATCTGGGTTCTTTGCAGCTTCTGGCTATTATAAATAAGGCTGCTATGAACATAGTGGAGCATATATCCTTATTACAAGTTGGAACATCTTCTGGGTATATGCCCAAGAGATATTGCTGGATCTTCTGTCCAATTGGAATGTAAATAAAGAAAATATCTTTAAAAAAAAAAGTACTATGTCCAATTTTCTGAGGAACTGCCAGACTGATTTCCAGAGTGGTTGTACAAGCTTGCAATCCCACCAGCAATGGAGGAGTGTTCCTCTTTCTCCACATCCTTGCCAGCATCTGCTGTCACCTGAATTTTTTATCGTAGCCATTCTGACTGGTGTGAGATGGAATCTCAGGGTTGTTTTGATTTGCATTTCCCTGATGATTAAGGATGTTGAACATTTTTTCAAGTGCTTCTCAGCCATTAGGTATTCCTCAGGTGAGAATTCTTTGTTTAGCTCGGTATCCCATTTTTAATAGGGTTATTTGATTTTCTGGAGTCCACCTTCTTGAGTTCTTTATATGTATTGGATATTAGTCCCCTAGTGGATTTAGGATTTGTAAAGATCCTTTCCCAATCTGTTGGTGGCGTTTTTGTCTTATTGACGGTGTCTTTTGCCTTAAAATACTAGTTTCAACACCAAAGGAATGTAAGGAGGAAGAAAAGGGAGACGCAGAGGGGAGGGAAGAACAGGAGAGTGAGGAAGGCAAGAAGGGAAAGGAGTTAAGGAACACTGGGAGTATTTTCCCCTGCCTGCTAAATTGGATTGTTTTGATTTTGAATTGCTAATATAAGTCTGTTAAAATACCAATGGCATTTATCTTTGAAATTGAATAATGCTTTTTATCTCACAGCTATTGTTAATTGGAAGAGATTGTATATATTTATGATATGCATTATATTTTTGTAGCAATATTGTGGAATAGCTAGATCCAACTAATTTACATAATTATCATCCTTATTGTGGTTAATACGCTTTTCCTAGATGACGGGTGACCTTGAACATATTTATATAGCTGTTGGCCTTGTGCATGTTTTCTTTTGGAAATACCTTTTAATGCCCATTTTTCTGCTGTTTCTATTGTTATTGCTGTTATTTGTTTGGAGAGAAGTTTCTTGTTTGTTTGTTTTTTCTTTTCCTTGAAACAAAGTTTCAATAAGAAGCACAGCTGGTCCTTGAACTAGCTAGTATCCCAGGCAAGCCTCCAACTTATGATCCTCTTGTTTCCTTCCAAGTGCTGGGACTGCAGGTGTGACTATCTGGCACTAGGTTCTTTCTACAAAAGAGCTACTTTTCTCATTGAAGTTTTAGACAACATATTCAAATACTGGTTCTCATCCTGCATCGCCCCAGGTCCTCCCATCCCACTGTATGCCTTCTTTCTCTCTCTCTTTAAAAAACAAACAGGCAGACTTTTAAACACCAGGTTTAAAAAAAAAACAATAAAAAGAACAAGAAACACACACACATACACACAAAGCCCTTACAAAATTAGAAAACACAAAACAAAAAACAAAAAACCAAACAATACCAGTAAGATAAAAATGCCCAAATAAAGCCATATGAAACATAAAAAGACAATCAACAGGCACAGCACTGAGTTCATTTTGTGTTAGCCATCTACTGCAGGGCATGGGCCCAGCCTTAAGCATCATTTGCGTACCCACTGAGACACAGAGAAAACATGCTAATTTGTCTTCCTGGCTCTGGGACGCCTCATTCAGAATGATTGTTCCCAGGTTCACTCATTCGGATGAGGAGCCTGGGGCCAGGGGCTCCTCAATTCCTGGACATTCAGACGCCTCTGGGGAGCTGGGAGTTGGGAACGGAGTTGGGTTTCTTGGGCTGAGGAGCCCAGGCAGAGGATGGGGAACTCCAAGTTTAGCTCACCAGCAACTGTCCTTAGCTTAGCAGTAATTGTCTGGGAGCACTGAAGGGCCTTCTGCAGGAGACTTAGAAGGCAGATGGTGTGGCTCTGTAGATGAAGGCTTTCTCCATGGTCCCCACCGTGGTTCTTCACGAGAGAGACCGTCTTTGGTTCCAAACTGTTCATTGATTGGGAACCCCAGCTTCAGCCTCCCTTGTCTTAGGCCTTGAATTCCCATTCTTTAAATGACCTTTTTTTTTTTTCTAG
Seq C2 exon
GAAGAACTGGAACCATGGTGTGTGCCTGCCTCATTGCCAGTGAAATAGTTTTAAATGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031481-Tpte:NM_199257:21
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=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0078215=DSPc=FE(24.0=100)

							
A:
NA

							
C2:
PF0078215=DSPc=FE(16.0=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000076435





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000033870, ENSMUSP00000067438
  



Associated events






Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr13:52809417-52827879 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr12:21774395-21778853 
LOW PSI
BtaINT0002526
([1])
Chicken
(galGal4)
chr1:169797201-169798394 
LOW PSI
GgaINT0114690
([2])
Chicken
(galGal3)
chr1:174776633-174777826 
LOW PSI
GgaINT0114690
([3])
Zebrafish
(danRer10)
chr10:24728553-24730668 
LOW PSI
DreINT0167048
(tpte)
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"