Special

MmuINT0167067 @ mm9

Intron Retention

Gene
ENSMUSG00000034848 | Ttc21b
Description
tetratricopeptide repeat domain 21B [Source:MGI Symbol;Acc:MGI:1920918]
Coordinates
chr2:66026317-66029840:-
Coord C1 exon
chr2:66029616-66029840
Coord A exon
chr2:66026438-66029615
Coord C2 exon
chr2:66026317-66026437
Length
3178 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
3' ss Seq
GTCTTCCATTGTCCCCTCAGTCC
3' ss Score
9.11
Exon sequences
Seq C1 exon
AAGGATCATATCCCAGCTCTCTTGGGAATGGCAACGGCTTATATGATCTTGAAACAGACTCCAAAAGCCAGAAACCAGCTGAAGCGGATTGCAAAAATGCCTTGGAATCCTATTGAAGCCGAGGATCTGGAGAAGAGCTGGCTGCTGCTTGCTGATATTTATATCCAGTCAGCAAAATATGACATGGCAGAGGAATTACTAAAGCGGTGTCTCTGCCATAACCGG
Seq A exon
GTAGGTGACTGGGAAACAGTGGTTAACTGTGTGGCATAAGCTTCCCATAGCAGAGCAATGGGTCCATGTCTGATGCCTCTCCTTTGGGTCTTGAATTTTAAATGTTTAAAATCATAGTCAGGAAGTGAATACTAATGATAAAAAGAAGCTGTGTTCCCTTGAAGGAAGTGGGAAGATAGATTTGTGCAGCTTCAAGTCTCAGCTGGTGATGCCCCGCTTAAAAGAAGTGCTTTCAGAATGTCAAGCATTCGCCATGATTACCCAGCTCATCCCAGAACTAATGAAAATTGCAGATTATTCATTGTGGTCGTCTGTCCCTCCCTTTAAGAAGTGTTCTTGATGAACTTACTGCAGCTGCATGTCATCTCCACATTATTAGACCAGTATGCATAATATATATGGGGGCTTCTAATTCAGTTTAATGAAAGTCCTTATCTTTAGGGAAAAATGGAAAATCTCCAAGTCTATACAATGTGAACCCTATTTACTTATGTTATTTAAACACATAAAGAAGATAATGTATTATGATTTTTTAATATAGGTGTAAATTAGTGTTTGCTGAGAAATAATTACATTTGACTTAGAAAGTTGAGGCTATTTGTATTCACAGATTCATACCAATTAGCTAAAAATGCTAATCACAGTAAATCTATTTTTCATTTTCTCTAAGCAAATTATATTATAACTTGGATCATTTACTTCTTAAGGAGGAATTATGATTACCTATAGTATTAAGATAATCTTAGGAATGAAAACCCTAGAATGTATGTCCATTATCAATTGGTAGACAGCTTTAAATGACCAGTTTCATCAATTTTAACCTAAATTGGCCTTGAAGACAAAATACTTGCTGATAAGCTTTAAAATCTAAACTACTGTGCAGTTGAACACTATACGCCTAGTCTGAGATTAATCAACCTTGACATAGGAATCAAGGCCTTGACATGGATAAAATCCCGCCTCTCATCTACACTGACCACATAGCAACACCTTGTAACATTAAACTTGGTTGCTCCTTCAGAACCTTCATTCAGCCCAGTTGCTTTGGCATATCTATTTGAAAGCATGAGAGGCTCCGGAATCAAAGCTTAGGAGCCTTGAATTATATAATTTTAGAGGGAAATCTCTGATATTTGGACCAAGAAAGCATAAAACAACACTAGAGCATCTTGCCATACCAGATGGCAAAAAAGCTATCAAATACAGTAAGCGTCATACCAGGCACTCCGGAGCCTCGTGGAAGACAGTCCAACAGCAGAGTTGGGACACCAAGTACAAAAAGGAGTGAGAACTGCAATAGATTAAAACACATCCGATATGTTAAACACATGACTGCATAAAAATACAAAAAAGAAAATAGAATTAGTCAACTGAAGTATGCTAATAAGCTGAGTGTTTCTGTCAGACAATGGAGAAGAATTCAACACTTACCCTGGGTTTTCTGTATGAACTGCATTTGTAAGTGGCCAATTATTTGATAAGATATCTCAATATATAAATGTTCAAAATAATAATCCATGATAACTATCACTATGTTTCAACATGGACGAGTTTATGAATGGGCAGAATATTACAAAGGAGAGAATCAAACATGCGGTGCTTTGTTATAGAAGAACACAATGTCTATGACAGAGATGGGGGTTAATGAGGGAAAAACCACAATCACAATGATTACAACAGTGTACTGTATTTTCAATCAAGTGAAATGAGAAAAAGTAATATGAAAACATACAGACTCTACTGTGCTGAGCCGTGGGACACTGGGGTGGGAGCTTTCTCAGGGTCACATTTTTGTCTGTGATTTAATGGAAAGTGGTTTTAGTGAAAATACTTAGTGATGAAATTTCTTAGAATAAGGAAGAACCTTACAATAAATACTGTTGGTATATAAAGAAAATATTCAGACTGAACCCCTAAAACAGTGATTTTCAACCTGTGGGCCATGACCCTTTCACTGGATTCGTCTAAGACCATGCTGAATATCAGTTATTTACATCACAATTCAGAGCAGTAACAAAATTACAGTCAGAAAAAGCATTTTATGGTTGGGGGTCATCACAACATGAGGAACTGGATTAAAGGGTTAGGGATAGCGTTAGGGTTAGCGTTAGGGTTAGGGTTAGGGTTAGCGTTAGGGTTAGCGTTAGGGTTAGGGTTAGTGTTAGGGTTAGGGTTAGTGTTAGGGTTAGGGTTTGCGTTAGGGTTAGCGTTAGGGTTAGGGTTAGGGTTAGCGTTAGGGTTAGTGTTAGGGTTAGGGTTTGCGTTAGGGTTAGCGTTAGGGTTAGCGTTAGGGTTAGGGTTAGCGTTAGGGTTAGGGTTAGGGTTAGCGTTAGGGTTAGGGTTAGGGTTAGGGAAGCATTGGGAAGGTTGAGAACCAGAGCAAAAAGCAGGAAACATCAATAATATTGGACTGTTATTACAGAAACCCCACCAAAATGGAGCCAACCTAATCTGTGTAGAGAGAAATACTGTTGTAAAGATTCTTTATACTTTTTAAAATCAAGATAATAGAGACAGAAGAAAGATTCTCCAGATGAAAACAGACTTGAGCTATGTCAAACCACTCACAATCTGTGACCTGGATTGGATTCTCAGTCTTAAAAACTTCTTTAAAAATAAATTATATTTCAACCATTTTAAATATGACAGTCTCTAAATGTATGGGTGAAGTTGGTATATTCTAGGTGCCACGAGTTTGGGTTATACTTAAGGAAGTCTTTATCTTTTAGAATAGCATTCTAGCATATATATGGTTAAACTTATGCAGTATCTGAGTTATTTTTCTTGGTAGTATGGAAGTGTAAATGTGGGGCAGGATCTGAGTCATTGGTTAATTTTTGAAAGAAAGTTATGAATTCACTATACTCTTAAGTCTAAATATGTGTTTAAATTAGTCACAATAAACTGGATACCTGTCTGTGAGTCAAATACCCATCCCATTGTATGTATTCCTGGTACTATAAAAGAAGTTCTGCTTCTGATAGCTGTGGGCTGGCTCTTGGCATAAAAACCATTCAGTGTGTCCTTTCCGTACTTTGGTGCTATACACAGGTTGGAGTGCCATTGCTTTATACACCATGTAGAGGGGTTAACATGACTGCTCTGCATGTTATACACATTCTGTAAAAGTTTACTGGTATGGAGCTTAATCTGCTTCTGTCTTCCATTGTCCCCTCAG
Seq C2 exon
TCCTGCTGCAAAGCTTATGAATATATGGGGTACATTATGGAGAAAGAGCAAGCATACACAGATGCGGCCTTCAACTATGAGATGGCATGGAAACATAGCAACCAGACAAATCCTGCAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034848-Ttc21b:NM_001047604:26
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=0.008
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF134241=TPR_12=PU(97.4=98.7)

							
A:
NA

							
C2:
PF134241=TPR_12=PD(0.1=0.0),PF145591=TPR_19=PU(43.8=68.3)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000099779





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000088402, ENSMUSP00000131758
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr2:165880800-165883793 
ALTERNATIVE
HsaINT0174190
(TTC21B)
Human
(hg19)
chr2:166737310-166740303 
LOW PSI
HsaINT0174190
(TTC21B)
Rat
(rn6)
chr3:52289342-52292742 
ALTERNATIVE
RnoINT0157594
(Ttc21b)
Cow
(bosTau6)
chr2:30521394-30525162 
LOW PSI
BtaINT0154322
(TTC21B)
Chicken
(galGal4)
chr7:19181054-19183029 
ALTERNATIVE
GgaINT0048257
(TTC21B)
Chicken
(galGal3)
chr7:21157813-21159788 
LOW PSI
GgaINT0048257
(TTC21B)
Zebrafish
(danRer10)
chr9:50113743-50115940 
LOW PSI
DreINT0169092
(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






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"