Special

MmuINT0167072 @ mm9

Intron Retention

Gene
ENSMUSG00000034848 | Ttc21b
Description
tetratricopeptide repeat domain 21B [Source:MGI Symbol;Acc:MGI:1920918]
Coordinates
chr2:66080688-66085487:-
Coord C1 exon
chr2:66085365-66085487
Coord A exon
chr2:66080846-66085364
Coord C2 exon
chr2:66080688-66080845
Length
4519 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CATTTTTCTCCTCCTATTAGGTT
3' ss Score
10.49
Exon sequences
Seq C1 exon
GGGCCGATTTTGAAAGCGTGGCTTGATATTACAAGAGGGAAGGAACCTTATGCTAAAAAAGCCCTGCGGTATTTTGAGGAGGGATTACAAGATGGAAATGATATTTTCGCTCTTCTGGGTAAG
Seq A exon
GTGAGTTGGAGTCCAAGTAAATAAATTATGTTTTAAAGCTTAAAGAATCCCTGAAATGTAATAAACTAAGTAGATCACAAAAGATGATATTTGTGGTCCTATTTTCACCCGTCAAAGGGACTGCGTCTGTGTGGGACACAGCTAGAGAAGTGACTTCTCTACCAAAGGGCCTGATTTCTGGATCAATGTTATGTCTATGTCGATGGTGATTGGTCCTATGAGTTTGTTCCTGCAGTGTTTCCTTGGATCTATTATATGTGAGGGCTTGCCGGAGAAGAACCAGGACATGGAAAAGGTGAACACCTCATGTCGTGGGCCTTCTCTTCTGTTAGAGAGATGAACAGTGAGGAAATGTGTAAGTTGATTACCTAGTGTATAACTAGACTGTAGGTCATAAGTCCAGTATTAAAGCTGGAGTGGGAGACAGTAATGGGGCATGAATTTGCAGCTGGAGATGAGGTAGTCACTACATTTGACTTTTGAACAAAGATTTAGAGATGATGAGGGTACATCCCTGTAGCATGGTGGGAAAACATTAACAGTAAGAGGTGACAGATTCAGGTACCTCAAGGCACACTAAGGGCATAGCCAGCAATCCGTGTCAGAGGAGATTTAGTGTGAGAAGTTAAAGGTCAGAGGACAGAAGGGGAGTGTGGAGCTGAGGTCAGAAGTGACGAGGAGAGGTGGACCTAAGAGACAGGCATCTGCCTGTGGATTTGAGAGAGAGCTTGTGCAAAGCTTAAACAGGTAAGTTGTATCACTTGTATTTTGAGAATAAACAATTGGCAATCTTAAGAACTCCCTTGACTTGTATTATTTAAGCACACCCTTGCATCTGTCTCCACTACTATCTTCTGAACACTTTTCAAAATTGATCAGTGGGATGCATTGAGATGGCTCAGGTAAAAGAGCCTGCCATGGAGCCTGCCAACTGGAGTTAATCTCCACAGTGCACACAGTGGGAAGAGAGAACCCAGAAAACTCCTGGAAGCTGTCCTCTCTGTGTGTCTGTGTACTCACCTGCAGGCACATCCATACGGTGACTGATTCAAGGAGCAATAAAGGATTGGGACTGGTGAGATGGATTAATGTGTAAAAATGCTCTCTTAAAACATAAGGATGTGACCACTATTGCTTAAAACCACCCCCCCCCCACACACACACACACACACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGTGAGAGAGAGTGAGAATGAGAGAGAGTGAGTGAGTTTGATGCAGTGGCTCAGTACTATCATCCCAACACTGTCTGGTAAGATGAGGGGAGGGGACAGGAGAATTACTCAGAAGCTTGGAGACTAACTACTCTGGTGTGTGCAATGGGGAGAAACAGTAAGAAAGACCATGACCATGCCTCAACCAGACAGAGAGAATTGACTCTTCTAATTTATCCTCTGACTTCCACACATGTGCTGTGGCCCCTGCATACCTGCACTCAAACACCACCATAAGTAAAACTTTAAAAAAAAAAAGTGTTTCATTGCCATTTTGGGAGCTGGAAAGATGACTCAGGGTTTAAGACCTCTTGCAGAAGACCTTGCTCCTGTTCCCAGCACCCACGTCAGGAGACTCACCACTGCCTGAGACTTCAACTCCAAAGCATCCAGTGCCCTTTTCTGGCTTCTATGGGCAACACTGCTCATGTGTATATACTTCCACAAAGACACAAAGTTATAAATTAATAAATCTTCAAACTACTTTGTTTTGTTTTGTTCTCTCTGTGTATACACACACACACACACACACACACACACACACACACACACACACACACACACAGGCACACACACCAGTGCTGTGGACTTCATACAAATTCAGGACTAATCAAATGTTCTACAACTGAGCTATATTCCTAGTGTTTTTCAATATTTTTAAAATTGAGAATTAATTAATTTAGTTCAGGCAGGGTGGTAGATTCTTGTAATCTAAGCAATGGGAAGGTAGAAATGGGGAGATCAAGGCCAGTATATGGTATGCCATGAGACTGTCTAATATATGTTTTAAAAGGCTTTCTTATTTATGATAAAGAAGAAAAAGAGGCGAGGACGAGCATTTGTTTCCTGTTAGCATCACCATGTGTCTCAGTTTCAAAGGATGCTGAGTTTGTTCAGATAACAGTCAGCCTGCAGACCAGTATTCAGGATGGCTGGATTCCAGATCTTCCCCATTGCTGTGCTATTGGAGTCGGGCATTGTCAAGTTTTTAATTGTCTTCCTGTACTCTGTTCTTTAAAGGAAAGCAAATTTGTAACCTTCCAGGGTTAGGCTGTTTTAGGTGTTAATATGAAGGACTTTACACATTTACCATGATGCTAATATTGGTTTAATGTTTTATCTGAATTACTGTGGTATATTATCTATGTTATGTTTCTGTGAAAAAGCTACCCAAGACATTATAGACACAGTGACTTGCACCTAAAATCCCAGTACTTGGGAGGTCAGAGCATCTGTCATGAGTTCTAGGCTACATAGAAAGCTGTTTCAGAAGCTACACCCTAACCCCAACCCCATGAAAGACAACTAAAACCAAGAAGTCTGAGACTTGATGGTTCATAAGGAACAAATCTATTCTCACAATTCTAATGGCCGAGACATCCAAAATCAAGGCACTAGCAAGTGTGATATCTGGTCAGGGCCCTATCTCTTCAAAATGGCCCCTTGAACCGTCTTTCCTAATGGCAATGTTCTGTTCCCCACGGGGTAGACCAAAAGAGTGGGCACCATCACCACAGGCCTGTTTACAGTGGCATTACTTTTTAATGATGGGGCTGCCTCCAGCCAGGCCCCAACTCCAAGTAACTGTTGGTTTGGCAATTAGGTTTCAAGATCTATTTTAGAAGAGGCAAAAAAATTGGAGCTCTGGCAGATCCATTGTCTCACTTCGTATGACAATAATTATGTTGTACTTTTCAATTAATTTAAAAGTAATTATGTACTTACTTTTCAATTAATTTAGCAGAAGGGCCACATTAATATTTCTACTCAGACTTAAGTGCAGGCTGGTTTCATGTGGCCTAAGATGCTGCTCTGTGTTCCTGTGGGAGGGACTAAGGGACAGAGCACAGATGGTGACACTGCAGCTCTCTGTGGCAGGGTTTCTTTATTTTCAGTACTGCTCTGTAGATAGATTCCTAGAGAAAATGGGCACTAAAATTTATCCTACTCTTTCCTCCATTATTGTCTTTGTGCCAGTGAATAAAAGTTGCATAATTCCTGCAGTCCTTCTTAGGACCATTTATTTTGACACAATGGATTTATTGGTGACTATACTTTTCTACAAATGTATGAAAAAAGAATATAAATGTGTGTGTACATAAATATTAGATATTGAGACAAAATGCTAATTGTTAATTGAAGTACACTGAAGGAAAGATAATCTAGAAGGAAACAATGAAGAGGTGTCAGATGCTTTGCTCTCCCGAGTCATCTTGCAGACCTCGCCATGGGTTTTCATGTATGCTGATGACACGGCTAATTTTCTCCTGGGAGAAACAGTGCATCCAATACACAGACACTGTAAAACTATTTGCAGAAAGCATAATAACATTTGAGTAAGACAATAACTGTCACTACCTAACTGTCAGCTGCGACAAGTATTCTTTGTGCCAGTGAATAAAAGTTGCATAATTCCTGCAGTCCTTCTTAGGACCACATAGTCTTCTGCTAAATAAGTGAACTGTTAGGTCATGACTCCTTTATGGCCATTGCGGGTTAATTTTTTTTCCTTTTTATAGTTATTTTTTTTCCTTTTTATACCAAAAGCTGGGCAACAACCACCATGGGTGTGCCTCGTTGTGATGTCTTTCTTTCAATTACTTCCTTAAGATAATTCCTAGAACTGAAGTGAGCTCATGACAGTGGGTAGAATTTATTTTTAACCTGAAAGTAGCATTTCCAAATATAGTGTAACATTTATAAAATTGCTTTAGTTGTATATGCTATTTACAAATCTCCTAGAGATACTTTATTCTCTAGAGGTAATTTTTCCATTCTAAGTAGCAACATTCTTTCTGAAAAACCAACAAAAAAACAACTTTTTTTCTTTTACTCGTTTGAGTTTTGAGACAGTTTTGAGACTCTGTACCACATCTCAGCTTAGCCATGTAGAAGACAGGAGACAGACTGACTTTAAGTGGTGGCCATTTTCCTGTCTCAGCTTTCTAATACTTCTGCACAATATTTTAAGTTTTATCCTCTTAACAGGTTAATCAATACATTAAGAGTCTCTTTTAAAGTAAAATTGCTGATGTATGTATGCTAATTTTTCTGTGATATTTTAAGGTGTGATTTTGATAAAGACTTGGGTTTTTTTCTACATAGAATGATGTGCAACCTTGTTGAAAAAAAATATCATAAAATGCTAAGTAGCAGTATTCTGAAATAGCCCGGGCTGATCTGGAACTTACTCTGTAGCCTAGGCTGGCCTGAGAGGACCTGATGTACAAGGCCATGCTTTGACATCATTTTTCTCCTCCTATTAG
Seq C2 exon
GTTCTGTGCCTTGAGATTCGACAGAATTATTCCGGAGCTCTGGAGACCGTGAGCCAGATAATTGTAAACTTTCCAAGCTTCCTTCCTGCCTTTGAGAAGAAAATGAAATTACAACTGGCTTTACAGGATTGGGATCAGACAGTGGAGACAGCACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034848-Ttc21b:NM_001047604:5
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:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000099779





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000131758
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr2:165941185-165943218 
ALTERNATIVE
HsaINT0174195
(TTC21B)
Human
(hg19)
chr2:166797695-166799728 
LOW PSI
HsaINT0174195
(TTC21B)
Rat
(rn6)
chr3:52343277-52350355 
LOW PSI
RnoINT0157598
(Ttc21b)
Cow
(bosTau6)
chr2:30445326-30450104 
LOW PSI
BtaINT0154327
(TTC21B)
Chicken
(galGal4)
chr7:19157987-19159511 
ALTERNATIVE
GgaINT0048235
(TTC21B)
Chicken
(galGal3)
chr7:21134746-21136270 
LOW PSI
GgaINT0048235
(TTC21B)
Zebrafish
(danRer10)
chr9:50156264-50157075 
LOW PSI
DreINT0169097
(ttc21b)
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"