Special

MmuINT0165045 @ mm9

Intron Retention

Gene
ENSMUSG00000000275 | Trim25
Description
tripartite motif-containing 25 [Source:MGI Symbol;Acc:MGI:102749]
Coordinates
chr11:88860717-88866138:+
Coord C1 exon
chr11:88860717-88861396
Coord A exon
chr11:88861397-88866042
Coord C2 exon
chr11:88866043-88866138
Length
4646 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
CCTATGTGTTTTCTCTACAGTAC
3' ss Score
8.98
Exon sequences
Seq C1 exon
GATTCCTTCCTCGCTGCTTCTTAAGTACCGCGCGGTAGGGTGCGCAGCTGTCCCTGCGCGTCACGTCGGGTGAGCCCACGAGCGCGATGGCGGAGCTGAATCCTCTGGCCGAGGAGCTGTCCTGCTCCGTCTGCCTGGAGCTCTTCAAGGAACCTGTCACCACTCCGTGCGGCCACAATTTCTGCATGTCATGCCTGGATGAGACGTGGGTCGTCCAGGGCCCGCCGTACCGATGCCCGCAATGTCGCAAAGTGTACCAGGTGCGCCCGCAGCTGCAAAAGAACACGGTAATGTGCGCGGTGGTGGAGCAGTTCCTGCAGGCCGAGCAGGCGCGGACCCCGGTGGACGACTGGACGCCTCCTGCCCGCTTCTCCGCCTCCAGCGCAGCCACCCAGGTGGCCTGCGACCACTGCCTGACGGAGATCGCAGTGAAGACGTGCCTCGTGTGCATGGCCTCTTTCTGCCAGGAGCACTTGAGGCCTCACTTCGACAGTCCGGCCTTCCAGGATCACCCCCTACAGTCGCCCATTCGTGACCTTCTGCGCCGCAAATGTACCCAGCACAACCGCCTTCGGGAATTGTTTTGTCCCGAGCATGGCGAGTGCATCTGCCATATCTGCTTGGTAGAGCACAAGACCTGCTCCCCTACGACCCTAAGTCAAGCCAGCGCCGACCTGGAG
Seq A exon
GTAGGGAGTGGCTGGTTGAGGGTATAGAGGACAGCTTGGATCAGCTGAATTGTGGAGAGGCCATCCTGGGTATCCCTGTAGTACAGTGGGTTGCTAGAGGAGATAGGCTTTGCTGGGCCAGAGATCCCATTCCTTCACAGACCTCATGGCCTTAGGCTCCGTGGGCCGCAGTCTGGGAGTTGGGCAGTAGGAAGCCATCCCCACAGACCAAACAAGTAGATTTTATATAGCCTCCCGCTCATCCATTATCGCCTGCCTTCTCCAGCCCTCTTAGTTCTATTTTACATAGAGCACAACGGAAGGCACAGGTAAGAGTGCCTGCCCCAAGTCTGTGTTTGTCCAGTGGAGTTCAGTAGTTTTGAATATTAACCAGGAACCCTGGGGGTTACCTCTCCAACCCCTTCAGATCCTGGCAGCACGAAAGGGCTGTGTCTGTTTAGTTCATTCCACAGCTCAGGGCTGTGTCTGTTTAGTTCAGGAAAACAGGCCCAGAGAAATTAGCTTAGCAGGAACCAGGCTGCTTTGAGTCACAGCTTCTGGTTTCCTTTTTCCCTGTAGACCACAGATCTGTTGAGTCCAGAGCATGGAGCAGTCTTGGAAGCTTGAGGTTAAGGGTAACAGAAGCCTCTGTTGAGGAGGGTGTGAATGGATAGTGAGTGTGAACACAGAGCCTCAGAAATCCCTGCTTGTGACTTTGGCACTGTGGTATAGCCCTTTTTTGGTTGTTTTTAAGACTGTCTCACTATGTAGTCTTAGCTGTTCTGGAGCTTGCTATATTGACCAGGCTGGCTTTGAACTCATGGAGACCTGCCTGCCTCTGCCTCCCAAGTGCTGAGACTAAACGCACGCGCTCAGTTGGTGTAGTCCATCTTGCTGTGTGAAAATTGAGCAGGGCCTGGCGTGGTGGCGCATGCCTTTGATCCCAGCACTCGGGAGGCAGAGGCAGGTGGATTTCTGAGTTCGAGGCTAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCTGAAGCTATATAGAGAAACCCTGTCTCGAAAAACCAAAAAAAAAAAAAAAAGAAAGAAAGAAAAGAAAAAAGAAATTGAGCAGGAATTGGGCCTCTGGACCTGGGTCCGCCTTGCTAAAGACTGGAAGCGTGTGTCAGGGAGTCAGGGTTCCTAATGGCCTTGTGGGGTTGCAATGATTTTAGTGGCTTTAGAGGTCCCCCCCCCATTACAGACTCAAAGCAGTTGTTGCCTCTCTTCGGTACATTTGTCAAAGTGTGATCTGATCTCCTTTCTCTCTCAAACGTCTGAGAACTTGAGGCCTGTCCCAACATTGTGGAAGGAATTGGAAACCTGGGTGAGGTTGGCAAGCCTTGCTGTGTGGTGCCAAGATCTCAGCTCCGCTCCCTCCTCCTGCCACAGCCCTTCCCTGGCCTTGCCTGCCTGTCTGGGTCTTAGTCAGGTCCCTTAGAATGTCTTCCCTCTGATTCTTGGCACCTGTATCTACAGGTAACATCTTTAGAGTTCTCTTCAGTATACCCCATGTGGGTACGGGGTACGGATACCTCCAAGTCTAGCTGTTCTGGGAGAAAGTCTGCCCCGCCTTTGGTGCTTTTGTCTTTGCTACCACCAGAGCTAGCTGTTTGGCTTGGGGCAAGACCCTACAGATCTCTGGGTAGGTCAAGAGCCACCAGGGAAGTGCCGCAGAGGCAGGATCCGGTGTCAGGAGGCTTGGCACTTAAGAGGTCCCTCCCAGATTCAGTGCCAAGATCTTGGTTTAAATTGTGACCCCCAGCAGTAGCTTCCAGCTACAGAAGAATAAAATGGGGAACATGATGGTCTCCAGTTACAGTGAGGGCTGGTGAGATGGCTCAGTGGGTAAGAGCACCCGACTGCTCTTCCGAAGGTCTGGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCTGTAACAAGATCTGACTCCCTCTTCTGGAGTGTCTGAAGACAGCTACAGTGTACTTACATATAATAAATAAATAAATCTTAAAAAAAAAAAAAAAAAAAGGCATGCTCCAGTTACAGTGAACCTTGGGTGAAGTGAAGCTGGTGTAGTGGCTCATGCCTGTAATTCCAGCCCTTGGGAGGCTTAGGCAGATAAATCATGAGTTTGAGGCCAGCTTGGACTACATCGTTTCAGGTCAGCTACAGGGTGAGACTCTTGTCTCAGAAAGACAACCACAAATAACCAGTGGCCAAGGAGGTGGCTTGGCTGGTAAAGGGACTTGTTACCAAGGCTCTGGCCTGAGTTTGATCTCTGGGACCAATGGTAAAAAGAGAACCAACTCCAGCAAGCTGGTCTTTGACTCGACAATCCGTATGCATGTGATCGTGTGTGTGTGTGTGTGTGTGTGTGTACGTGTACACACAACTAAATGAATGTAATAAAAGAAGCGAAAGTGGATAAGTCAACTCTCTGCAAGATTTCCATGTAAGTTACTACCTACCGGTTCTATTATTGGGCTTGGGCACCCTGGTCTGTGCTCTGGGGCAGCCCCAGGCAGGACAAAGTGTCCAGATTGGTCTCTGTCCCAGTCAAGTGGACTTGCCATCAATCCCTGTAGTAGTACCCTGCTGTATAAGTACATATTTACCAAGGCAGAAGTAAGTGGGGGCATGAGGGGCCTCCCCAGCCAGGAGTGAGCGGCCATTCCTGCTGACTTTTTAATCCCGATACCAGGATTCCTCCTGCCAACCTCCTGCCCATATGTTTTTCAACCCAGCTGCTGTTCTTCCTGTCTCAGTGCCAGACCCTGGCAAGCGTGCTCAGTCTTGAGTATCACGGCTACTAGTTTGGGGGTGCAGACTCAGGATTCCCCTCTCTCCCCCGTGGAGGACCCAGGTCCTTGGTCTGCCACAAGCTCTCCCAGGCTTCCCAGAGTTCTGTATCCTTGACCAGTCCTCAAGCTGCCTCTCTTTGATTTGGAGTGGGGTGCAGTGGACCCCCATCCACAATGAGGGGACTGTTATCTGTGTTTGCTTAATGGTGGATAACCTTTTTAGTGTGGAGGGCTCATAGTGCACTCAATTCTGGAATTGAGTCAGTTGCTAGCACCCGTATGTTTCTTCCAGCCCGGGAGGTAGTTCTGCCTGGATTTGCCCTTTGACCCAAATCTATCTCCGCCACTGTTGGAGACCTGAGGTGGGGGAAGGGTTGTGTCAAAGAGATTGAGCCAAACATCACTGATCTGGGCTTTCTGGCTACAGTTTGCGCAGCCTTGATCTCTGTATCCGGCCCTTAACGAGTGCCAGTGGATGGTGCAAATCCAGCCCCAAGGTTAGGTCCAGCTCTGATGGAGTAGAGGAAGCAGGAAAGTAGAAGAGAGAGCTACTGTGTGTTGAGCTGCTTCATTAGGGGAAGGAAATGCTATTATAATATTTTTTTTTTTGTAGAAATTCCTAGCACACACAGTTTGGTCACTTGTTTATAAATTTAGTACCATTGTTAGTAACCTGTGCCAGTTACTAACAATGTGGTCTTGGCTGAGTCGCCTGATTCCTCGACATCCTTCTGTCGTGTCTGAGTGATGTCTACTTTTCCGTGTTGCTCTAGAAGTAGTAGGTGTCAGGTGCTGGCAGAGTGTGTGAGCCCTTCATGACAGCCCTCATGACTGATGGTGGAGTGTCCCTTCTCATCTCTGTATGGCACCGATCTATCTTAGCAGGGACATAGGAAACTTGCTCCTGGAGGTGGCTGAGAGCCAGACAGTTTTGAATCAGTGTAGTTCTTTCAAGCCCCAGTGGCCAGCTTACCCTGATTCTCAGCCCTCAGTGGCCCTGGCCTGGGGTGGCCAAGTACAGTTGTGCATTTGTCCCTGCCTTGCTGGAGGTGACAAAGCCTCACCCAGCTTCCTTCCCCCTCCTGGAAGTCTCCCCTGGGGAGGACAGCCTTGGGTGTTGGGCTCCTTCGTTGGGTCCCCTTCTGGAAATGCCAAGGCTTTCTTAGTTCTCCAGCACCTTTGATATTTTGTCTACTTTCAAGGCTGTTTGCTGTGGTAGGGTGAGCGACCTCACCCTGCCGTTACAGAATCAGCTGTTCCAGATTGTTACGTCTCTGTGAGCTGGGCCACTTGCTGTCCCCCTTGCTTGGATTTCATGAGCTGTAAAATGAGTAGGAGAAAAAGAAATGTATTAGAATAGAAGCTGACATTTAGTATTGACAGATCCTCCAGGCAGGGCTCTGAGCACAGTCCTTGGTTAGTCTTCCTGATTGTCCCTGTAGCTGCTTAACCAAACCAGTGGTTTCTGTTCATGGCCAAAGAAAGAGACAGAAGACATATGGCTGGGAACAGGCTTTCAAACAAACAGGGTCATTTTGGTTCCAAGTCTTTTTTTTTTTTTTTTTTTTTTTTTGGTTTTTCGAGACAGGGTCTCTCTATATAGCTTCGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCAAACTCAGAAATCCACCTGCCTCTGCCTCCAAAGTGCTAGGATTAAAGGTGTGGGCCACCACGCCCAGCTGGTTCCAAGTCTTGTATTGTCTTCCTGAAGGGGCAGCGGAGTTAGGGAGGGAATGGTCCTCAATGTGGGGGAGGGGCTAGGACATAGGCTAAGGAGGGGCTCTCTCACCCTATGTGTTTTCTCTACAG
Seq C2 exon
TACAAACTGAGGAATAAACTCACTATCATGCACAGCCACATCAATGGGGCAACCAAAGCATTGGAGGATGTGAGATCCAAGCAACAGTGTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000275-Trim25:NM_009546:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion (1st CDS intron)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.007 A=NA C2=0.052
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF152271=zf-C3HC4_4=WD(100=20.7),PF0064319=zf-B_box=WD(100=19.7)

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000103528





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000000284, ENSMUSP00000098185, ENSMUSP00000098192, ENSMUSP00000103527, ENSMUSP00000125770
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr17:56908564-56913391 
ALTERNATIVE
HsaINT0172231
(TRIM25)
Human
(hg19)
chr17:54985925-54990752 
ALTERNATIVE
HsaINT0172231
(TRIM25)
Rat
(rn6)
chr10:76344502-76348616 
LOW PSI
RnoINT0155755
(Trim25)
Cow
(bosTau6)
chr19:7954496-7959189 
LOW PSI
BtaINT0152624
(TRIM25)
Chicken
(galGal4)
chr18:6259604-6260678 
LOW PSI
GgaINT0127275
(TRIM25)
Chicken
(galGal3)
chr18:6291401-6292475 
LOW PSI
GgaINT0127275
(TRIM25)
Zebrafish
(danRer10)
chr7:73468903-73469107 
LOW PSI
DreINT0002544
(BX664721.4)
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"