Special

MmuINT0157277 @ mm9

Intron Retention

Gene
ENSMUSG00000029192 | Tbc1d14
Description
TBC1 domain family, member 14 [Source:MGI Symbol;Acc:MGI:1098708]
Coordinates
chr5:36865576-36867697:-
Coord C1 exon
chr5:36867579-36867697
Coord A exon
chr5:36865659-36867578
Coord C2 exon
chr5:36865576-36865658
Length
1920 bp
Sequences
Splice sites
5' ss Seq
TGCGTGAGT
5' ss Score
7.55
3' ss Seq
CCTGTTTATTTCCTGTCAAGAAA
3' ss Score
4.27
Exon sequences
Seq C1 exon
GAATATGAAGACAAGGCTGGAAGACCGAGCAGGCCACCCTCTCCCAAGCAGAATGTGAGGAAGAACCTGGATTTTGAGCCACTGTCCACCACGGCGCTCATCCTCGAGGACAGACCTGC
Seq A exon
GTGAGTCTGAGGAAGAGCCTCTGTCTGTCTGCCATGGGGGTGCGCCTTTCCTGGAGGCAGGAGAAGGGGAGGAGAATGGCTGGGTCTCTTGTTACCTCCATGTTAGCCTTCACTCAGTGTGACATCACATGGTGATTTAGGAAACTGTCCTGTGTCATAGAAATGTAACCAGGCTTTTCCTTTGAGGCAGTATTTGCTTGTAGTTTATTATACAGGTTTCCATTGTGTGGCTGCTGTAAGCACATGGCTAGTTTGGCAGTACAAGGAACCCTGCAAGCATGCTTCAAAGTAGTGCTTTGGGGGTGCCTGGTTTTTGTTTTGTTTTGTTTTGTTTTAGGATAACTCTTAGAGTGGCCTGTGGAGATTTTGGGTAGTTTGAGTCTGAACGCCTCTCTCTCTGGGCCCTTGTATCCGCATTGTGTGATGAGGCAGTCATGCTTGGAGACATGCCTGAAGAAGAAAGTCCTAGCTAATCTAATTACCGAATTTACACAGAACAGTGCATCAGGGAGAAGGTTTCCCACTTAAGAAAGAACAAGAACAACGGCAGGTTATCCTACCCTGGGCTAGTCCATTCCAGCCTCCTGTGCATCCCTGATATTTAAAACTGTGAAGTCAGGCCAGTCATATGGTCAGTAGGTAAAGAAAGATGCTTGCTGCCAAGCCTGCTTCCTGGTATCTGAATGGTGGAAAGAGACTGCTAACTTCTGCAAGTTATCCTCTGACTGACACACACACACACACACACACACACACACACACACACAGAGAAAATAATTAAATAAACAATTAAAATGTGAGGTCTAATGAGGAGTATATCTTCAGGATTGTAGAAAACCGTGAAGAGGAAGTTGGAACTCTAGCATAGAGGGACCAGCTCTTTTAGTGTGCTGAGAGGTAGATCGGGCTGGCCACTTTCCGCCAGTGGCGGTGGTTGCAGTCTCACAGGGAACATGGTTATAGTACTTGTGGAATGCAGGTGAGGTGCCATCACATCCCTAAGTCAGCTTAAGAGTCCACTGACATTCTCTATGGGATCAATATAGCTCCTGTGTGCGGCTGCATAAAACAGCGAAGGAACTACAGCACTATGTAGATTATTGCTCCCATTACTGTGACAAACACCTGACCTAAAGAAAGAAAAAGCTCAAGGGAGCAGGCCTTACCTTGGCTCACAGTTTGGGGGTATAGGCCATCATGGTGGGGAAGGCATGGCGGCAGGAGGTGCTGATCATGTAGCATCAGCCGGCAGGAAGCAGATAATGTTGGGACTTATCTTGCTTCCTCCCAGCCTTTGGAATGGTGTCACCCACATTTCTTCTTTAAACAAGTATGGAAATACCCTCCCAGACACACCCAGGGGAATGTTTCCTAAGGGTTGTAGCCAACAGTGTGATTAACTATCACAAGAGCTGATCTGGAACTAAGCACTTAAGCTGCCATCTAATATATGCTGTGAGGTCATCCTGATGCAGGGATCAGCTGTCGACGCTGCTGCTTTGCAGTAAGAACAATTTCTTTGAAGAATAGGCTGACTTCTTTTTTGTATCTTTATAACCCAGTGTTTCACAGTGAGTGTCATGCTTTGTCAGAAATGTCTGTGTGGGGAGATAGCTCGGTGGTGGAGCCCTTGCTTGTCTAGTGTGTGGAAGGCCCCAGGCTCAGTCCCCAGCTGGGCAAGGTAGCACATGGCCGTGGTCCCAGCACTTGAGAGGCTAAGATAGTAGGGTCTCCTGGGCCATGTAAGTCTCAACAAAACAAATGTAGTTTCAGTTTATGGAAGAACTTTTAAAGAAGTTTAAAAAAATGACTTTTTTAACCTTGGGTTTTAGAGCTTTTATGCAATAATGCTTCAGGTGATTTTTTCCCTCAGACTTTTATCTGGTTGTAACAGTGCAACCCTGTTTATTTCCTGTCAAG
Seq C2 exon
AAATCTCCCAGCCAAGCCAGCTGAAGAAGCTCAAAAGCACAGACAGCAGTATGAAGAGATGGTGCTGCAGGCCAAGAAACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029192-Tbc1d14:NM_133910:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.712 A=NA C2=0.717
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF085986=Sds3=PU(27.8=62.5)

							
A:
NA

							
C2:
PF085986=Sds3=FE(31.1=100)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000116217





     
                   









    
Main Skipping Isoform:
ENSMUSP00000116519





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000031094, ENSMUSP00000084830, ENSMUSP00000098830, ENSMUSP00000114508, ENSMUSP00000115467, ENSMUSP00000115926, ENSMUSP00000116519f2543A, ENSMUSP00000117414, ENSMUSP00000119347, ENSMUSP00000121516, ENSMUSP00000121816, ENSMUSP00000131876
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr4:6994303-6996324 
LOW PSI
HsaINT0164006
(TBC1D14)
Human
(hg19)
chr4:6996030-6998051 
LOW PSI
HsaINT0164006
(TBC1D14)
Rat
(rn6)
chr14:79407595-79409629 
LOW PSI
RnoINT0147943
(Tbc1d14)
Cow
(bosTau6)
chr6:118276525-118278421 
LOW PSI
BtaINT0145424
(TBC1D14)
Chicken
(galGal4)
chr4:79480238-79482806 
ALTERNATIVE
GgaINT0069291
(TBC1D14)
Chicken
(galGal3)
chr4:82873527-82876095 
LOW PSI
GgaINT0069291
(TBC1D14)
Zebrafish
(danRer10)
chr7:39421977-39422213 
LOW PSI
DreINT0160568
(tbc1d14)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ATGAAGACAAGGCTGGAAGACC

				
R: 
CTCGTTTCTTGGCCTGCAGC

				
Band lengths: 
198-2118

			

		

	





	
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"