Special

MmuINT0166949 @ mm9

Intron Retention

Gene
ENSMUSG00000039021 | Ttc16
Description
tetratricopeptide repeat domain 16 [Source:MGI Symbol;Acc:MGI:2443048]
Coordinates
chr2:32629502-32630077:-
Coord C1 exon
chr2:32629911-32630077
Coord A exon
chr2:32629593-32629910
Coord C2 exon
chr2:32629502-32629592
Length
318 bp
Sequences
Splice sites
5' ss Seq
GTAGTGAGT
5' ss Score
5.8
3' ss Seq
GTCCTGTCCTGTCCTCACAGCTA
3' ss Score
9.9
Exon sequences
Seq C1 exon
GAGCCTCACAGTGCCCGTTCCCAGAAAACTCCAAAGCTAAAGGTTCCTGAAGCCCCAGAGAAGATCCTGCGACGCATCTTTGGGACCAGTCATGTGTTCTATGTTATGACAGATCCTACAAAACGAAGGATGATAGGATCAACAGTGCCTGCCAAAGTCAGAGAGTA
Seq A exon
GTGAGTGACTTCTTTGTCTCCAACTCCAGGTTCCTACTCTACAAAACCATTATTAATACTGGGTTCAGCTGCAAGCTGGCTGCTATCCCTCTCTGGGTCTCAGTGAACAGCGAGGGTAGAGGGATAAGGGGCTGATGCCCTGGAAGAGCTCCAGGAAGGTCAGCCTGGCCTCTGTGGAGCTCTGATGGCTTTTGCAGCCTCTTTACCTCAGCCCTCCCTCCTGCATACCCCATTCTAGCCCTGAGAAGGTCCTGGGCTGGTCCCAGATCAATACCAGATCCACTGCCTGTCCTGTCCTGTCCTGTCCTGTCCTCACAG
Seq C2 exon
CTATAACCAAGGCCATCAGTGCCTCCTACAAGAGGACTGGGAGATGTCTGTGCTGTTCTTCTCCCGTGCCCTCCACCTGGACCCCAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039021-Ttc16:NM_177384:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
No protein impact description available





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.239 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF134141=TPR_11=PU(7.4=23.8)

							
A:
NA

							
C2:
PF134141=TPR_11=FE(44.1=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000124031





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000068977, ENSMUSP00000088585, ENSMUSP00000123927, ENSMUSP00000124054, ENSMUSP00000124915
  



Associated events






Conservation


Human
(hg38)
chr9:127717017-127717333 
ALTERNATIVE
HsaINT0174077
(TTC16)
Human
(hg19)
chr9:130479296-130479612 
ALTERNATIVE
HsaINT0174077
(TTC16)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr11:98410438-98410765 
BtaINT0154237
(TTC16)
Chicken
(galGal4)
chr17:4931600-4931798 
ALTERNATIVE
GgaINT1028746
(TTC16)
Chicken
(galGal3)
chr17:5561010-5561161 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCCTCACAGTGCCCGTTC

				
R: 
AGTTTGGGGTCCAGGTGGAG

				
Band lengths: 
255-573

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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