Special

MmuINT0157274 @ mm9

Intron Retention

Gene
ENSMUSG00000029192 | Tbc1d14
Description
TBC1 domain family, member 14 [Source:MGI Symbol;Acc:MGI:1098708]
Coordinates
chr5:36833253-36837925:-
Coord C1 exon
chr5:36837667-36837925
Coord A exon
chr5:36835764-36837666
Coord C2 exon
chr5:36833253-36835763
Length
1903 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TGTCTTCTCTGTGATTCCAGGTG
3' ss Score
9.17
Exon sequences
Seq C1 exon
GATTTTCACCTTGTACAGTAAGTCCCTGCCCTTGGACTTGGCCTGCCGCATCTGGGACGTATTCTGTCGAGATGGAGAGGAATTTCTCTTCCGCACAGCTCTGGGCATCCTGAAGCTTTTTGAAGATATCCTGACCAGGATGGACTTCATCCACAGTGCCCAGTTTCTGACCAGGCTGCCTGAGGACCTGCCCGCAGATGAAGTGTTTGCAGCTATCTCCACAGTCCAGATGCAAAGCCGGAACAAGAAATGGGCACAG
Seq A exon
GTAAGCGAGTTTGTAGCACAGCCTGAGACTGAAGCACTGTGTTGCTCAAAATAGTGCTCAGGCTGGAGGTGCGCAGCCTGGTGCCGGGCTGGGTTCTGAGAGCTGCAGGAGTGTGAGTAGGAAGACCGCCTCCATTCTGAATGTCTGCAGGACTCTGCCGGGATGCTCCGCTCCTCCCTAACCATTCCCTTTCTTATTTTCTGTGTGTATGACTCTCTGAGGGAGGAGCCGTGTATGTGCCCCACAAGAGTGTGTAGGTCAGAGACAACTCTTGGGAATTGGTTCTCTCCTTCCATTGTGTGAGTCCTAAGGCTGAACTCTGGCCTTCAGGCATGGTGGCAAGTGCTTTTACCCTCTGGGCTGTCTCAACAGCCCAAAAGTTGACTTTTGGTGAGGTTTGCACATGCACACCTTTGAAAATCTGGAAGACCACTGACTTGCATGCTTTATGTGAGAGAATTGCCCATGAATGATAGTCCAGCAAAGCAGTTAAAAAGGTGTGCACAGTCCTGCTCATGTGCTGTCATCAGCGATCCAGGAACAGAGGAGAGCCTTTCTTTGATTAATAAAGAACAGTGTGGCCAGGCGTGGTGGGCACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGCGGATTTCTTAGTTCTAGGCCAGCCTGGTCTACAAATTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAACCGAAAAAAAAAAAAGAAAAAAGAAAAAGAATAGTGTGACTAGAAACATGGGGTCCTGGCTCTGACGCTAAGCTGAGAATTTAAGATGTGGCAACAGAGCCTGAAGATAGAGTCACTTTGAAAGCTTTGTGGGAGGCCTGTGGGAGGAGTTTTGGAATCTTCCGACCTATCGGTTATGCTGGTTTTGTGGATCCAGATGGAAAGGCAGGCCTGCCCATTCCTGACTGCCTGCTCACACAGCCACAGCTGCCCATCTTCCACAGTGTTTTCAGAGATAGCATGGCTTATGCCTCACCCACAGCATGCAGAAGGATTTAGTCAGTCCAGGTTTTGGTTTTTGTGTTTTAGGGATTAGGTTAGAACTAGAGCGTGGGCCATTTGCAGTGAGACACTGGGTAGTGATAGCAGGTAATCTGATGGTAGTGGGCACTGGAGCGTTCTTGCAGCTCACGTGGTTCTCACCGGGACATGCACATTCATTTCAACTCTGTGCTGAGTGTATGGTAGTGCAGGCTTTCCACAACACGATACTGTAGGCTAGGTTAGCAGTCATGCTTTTTTGAAGGGAAAGGGTGCTTTTGTCTGCTATTGCTCCTTTTATCCAATTTTCTTGAGCCTCACTTAGTAGGTTTCTGCTTCACTCCCATCACTTGTGCTGCAAAGTAAGTCCTGTGCTGTTGGGATTCCAGGGCTTTGGAACTGGACAGGCCTTTCCACCGGTGTATTTGACAGCAGTCCCGCACCCTCACGGGCACTGACCTTCCTGATTGGGTGGATGAGATGAGGAGGAGATGGCAGCCCTGCCTTACAGAGGCTCTGCTTGGCACACAATGGGTGTGCAGCAAGGGAGCCTCTGGCTGTCACTGCTGCTGTTAGGCAGCAGTACAGTGGGATGCTTTGGAAAGGTGTCAACCAAGAGCTGGGAGAGCAGAGGGGGCACAGTCATCTCAAGACTGTCACACCTCTGGCCAGCTTCCCAGTGAGGGACCAGCTGTATGTGCACTAGTGGAAGGGTCTTGTCTGAGCCCTGGGGAAAGCCTGGGCCTCAGTGCTGTGCTCAGGGGCTAGCAGGCAAGCATGTGGGGCTTGGGGGTGGGGGGCGGTGCTGTGAGATGGCTGCTGCTTTTCTGCTGACTCGATGAGATTCTCAGGTCTAACCAGTGTTGTCTTCTCTGTGATTCCAG
Seq C2 exon
GTGCTGTCTGCACTGCAGAAAGACAGCCGGGAGATGGAGAAAGGAAGCCCATCCCTCAGACACTGAGGCTCAGGGTAACTCACTCCCACCGGTCAAGAAGCAGAGCTCAACATGGCACCTGTGTGCTTTCAGACTGAAGCCTGCCTGCCAAGAACAGGGGCTCTTTCCATGTTGGATTTCTGATGCTGAAGTTGGCCTTACAACAAAACAGAATTACATCCAGGTTTAGCCTTAAGCAGCTCAGTGGGCCCATGCACTGGCATTGGTCATGGCTAGCCACTGCATTTTCTACATGGGTTCAAGAAAGGGCAGGCTGTCTCCTTGAACCTTTATTCCAGCAGCAGTTAATTAAATTGTGATGCTATTATGCCAACTACTGGAAGGTACATTACAATCTTTCTTAGCCAGGATGCATGAGAAATGTTATTAGGAAACCTCAGAGTTGTTTTTGGCCCATATGCTTGTAAGAAAGGAATTACTTAGTTACTGAGATAATCTTTCCAGAGATGAAAGGTGTGTTTTAAATCTCCCTATCAAGGACATTGTAAGGAAGATGGGCCCTTGCAGGGTAGTTGCTGGTGAATCTCATAGGCTCCTGGGAACGCACCTGACTTTTGTGCTGACATTGACCCATTGTTGCCTTGACACTTGATAGCAAGAAGGCTGAGAGTTCATATCAGGATCCTACTCTGCAAAGGAGCACTCATTGCATCTTGGGAGCTAGAGTGGTTGGAGCAGGGAAGCCATATGCTGTGAAGGGACAGAGACAGGCTCTGTAAAGAGATAGGAAGGACGAGACTGCAGAGTTTGCTCCTCTTTAACCTGCTTGCTTCTGGGGAGGCTGGGCATGGCAGCCTCTGAAAACACCATTGTGTAGGAGATGGCTTCCTTGCTTTAGCTGAATGTCCCTTTTTGCCTTTGTCACCTGAGTAGCTGGATCCCTTCTAAGTGCCAGTGATTCTCCCCTGTCCCCGTCTGGCTTTAGAAATGAGTTCCACGCACTGCTATAAGGACAAGAGTAAGGCAGCCTTCCACCCTCTGTGTCCTGAGCCCTTCCCCATTGCAGCTGATTCCTCTCAGTTCATTGGTGAGGTGCTTGTTGCCCTAGCTTTTCCTTGACTTGAGAACTTTGTATAAGAAATTTTATTTTCCAGATTCACAGAAATGAACAGTTTCTACGTAGAGTAGAACAGTCCAGTATCTGTGGAAACTGGTTACCTTCTGATATCCATTGGCATTCTGGTTCCTGAGGGTGCAGGAAGGCCAGGGTTGAGAATGTATTTTCCAGCAAATCCCTGTGTGGTCTGTAGTCCACAGCCCTCCACAGCCGTACCTCCCACCCCCAGAACTCACCCTTTCCATCTCTGTGTTTCTGAGAGCTGTGGGGGAGCCCTTGACTGATTACAGCATGTGGCAGGGAGGCTTGGGGTCAGCCTCATGGCGCTGTGTTTGCATGGGTTCCCTTCATCTGCTATGCCTGTTGGTGACCGTCCAGTGTATCTGCGGGCTGTCGTATTTGTGCTCTTCACCCCATGCTCTCACTTTCCTCTTTTCTTGGAGTCTCATTTGTAGTCTGTGACTTCTTCAGGGAGGCCACAGAGCACCCTCCATGGAGCTCTCTGCCTTAGTGTGAAAGGCTGATGTCTGACCTCTTGGAGGAGGATGTCTTCACAGCCATCCATGGCCTCCAAACCCAGCCATTCCTGACATCAGACACTGAATGTAGCCCAGGCCCAGCTGGCCATAAGATGCGCACTACCCAGCCCTGTCTGCTGTCCTTCCTTGCAGATGTGTACTGAGTTTTCTCCCACAACATGGGCATCTGTTCTCTCAAGATGTATATATTTTCTTACTGTACATAAAGACATTCCTTACGTCATACAGAAAGTGTTGTGACAAGGGGACTTGGGCACCTTGTTGTGAATGCCATTGTGGGATTCTCTGTGTTCACAACCCAGCCCTTACCTTTTCTTGTTTGACATAAATCTGTGGGCATGCATGAAGTTCTCCAACAAGACTCCATGCCAGCCGAGCACTGACTGCATCTCTAGTCCAAACAAGGTCTTTATAGACTGACTGGGACTTGTGTGAGCCTGATGTACCCTCCTTCGAGGCTATACAGTTCCACGTTCCTCTACTTTGAGGGCGTCTCTCATACTTCTCTCATACTCCTGTTTTGGCAAACTGGAAACTGACCCTGCAGAGGTCTGTACCTCCCACCTCAATTGCCATTGACTTTCAGTCCCAAACTTGAGGGTGCTGGGCAGCTGGCACTCTGGAGGGAGCTTGCAGGAGAGTTCCTGTCACCTTGGGAGCAGTGCTTACTTCAGAGGTACTTCTAACTGCTCAGTTTGCCAATAGGAAACTCCTGATAACACTTGCTACATATCATGTTTTAATTGCTTGTACAGTTAACCTTTAATTTTGTTTAGTAAAGTGTATCAAACTAGGACTTTTTGAATTGTAAATATGTGGTTTTATTAAAATAAAGTCATGTAAAATTGTTACTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029192-Tbc1d14:NM_133910:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.381
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0056613=RabGAP-TBC=PD(19.7=51.7)

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000116519





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000031094, ENSMUSP00000084830, ENSMUSP00000098830, ENSMUSP00000114508, ENSMUSP00000115467, ENSMUSP00000117414, ENSMUSP00000119347, ENSMUSP00000121516, ENSMUSP00000121816, ENSMUSP00000131876, ENSMUSP00000133477, ENSMUSP00000134405
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr4:7025263-7030326 
LOW PSI
HsaINT0164003
(TBC1D14)
Human
(hg19)
chr4:7026990-7032053 
LOW PSI
HsaINT0164003
(TBC1D14)
Rat
(rn6)
chr14:79434435-79436258 
LOW PSI
RnoINT0147939
(Tbc1d14)
Cow
(bosTau6)
chr6:118306210-118309680 
ALTERNATIVE
BtaINT0145422
(TBC1D14)
Chicken
(galGal4)
chr4:79501572-79504442 
ALTERNATIVE
GgaINT0069300
(TBC1D14)
Chicken
(galGal3)
chr4:82894861-82897731 
LOW PSI
GgaINT0069300
(TBC1D14)
Zebrafish
(danRer10)
chr7:39428118-39430851 
LOW PSI
DreINT0160564
(tbc1d14)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CGCAGATGAAGTGTTTGCAGC

				
R: 
TAGCCATGACCAATGCCAGTG

				
Band lengths: 
342-2245

			

		

	





	
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"