Special

MmuINT0158800 @ mm9

Intron Retention

Gene
ENSMUSG00000037705 | Tecta
Description
tectorin alpha [Source:MGI Symbol;Acc:MGI:109575]
Coordinates
chr9:42183075-42186147:-
Coord C1 exon
chr9:42185577-42186147
Coord A exon
chr9:42183668-42185576
Coord C2 exon
chr9:42183075-42183667
Length
1909 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGC
5' ss Score
8.15
3' ss Seq
TCTTCCTTTCTCCGCACCAGTGT
3' ss Score
6.75
Exon sequences
Seq C1 exon
GTTAATGACCTAGTGACTTCTTTGCCCGTCACCTTAGAGTTGGGGGCGGTGAAAATCTACCAGAGTGGCATGTCTACTGCCGTGGAAACAGATTTTGGGCTCTTAGTGACGTTTGACGGCCAGCACTACGCCTCCATTTCCATCCCAGGCTCTTACATAAACTCTACCTGTGGCCTATGCGGGAACTACAACAAAAATCCACTGGATGACTTCCTCCGCCCCGATGGCAGGCCCGCCATGTCGGTGCTGGACCTAGGAGAGAGCTGGCGTGTCTACCATGCTGACTGGAAGTGTGGCTCTGGCTGTGTAGACAATTGTACTCAGTGTGATGCAGCCACTGAGGCCCTCTACTTTGGTTCTGACTACTGCGGCTTCCTCAACAAGACGGATGGCCCCCTGTGGGAGTGCGGCACTGTTGTGGATGCCACGGCTTTTGTACACAGCTGTGTGTACGACCTGTGCAGTGTGAGGGACAACGGCACGCTCCTCTGCCAAGCCATTCAGGCCTACGCCTTGGTGTGCCAAGCCCTTGGCATCCCAATCGGAGACTGGAGAATCCAAACTGGGTGTG
Seq A exon
GTAAGCTGGCATGCCATCCTATGAATGATGTCTCCCGTGCTGGGGTCAGGGATAGGATTTCAGGCCTCCTCCTCCAGACCTCTTCCTCCAGACCCTGATAAGAATCACGGTCCAAGAGTAAGGGTGGTGTTGCAATGTCCCAAATTATATAGAATGAACTGTGAAGAGAACTTTCCTTGACCCCCACCCAAAGTCCTAACCAGGAAACGATATGCCGTCGATGAACTTAACGCATCTAGATACAGAAAATGTGTGACTAGAGGGAACTCCATTTTGGGGATAGCAGCCCAGACCTGAGCCAGGGAGAGTTGCTGCCACCACTGGAGTGGCTGCTGAAGAAGTGCAGAGACTAGCCTAGGGGACAGAGTCTGCCTCCAGTTATGGCTTTCCCCAGGCAGAGGCTTCTGTCATGGCTCTTAGTTCCTTAGCTTTTATGCCATTTGTCCTGCAGCATCTCATTTAATCTGGTGAGAGAAAGGACTGTGGACAGGAAATGTAGACCATCAATGAGGAAGCCCTTTTCTTATGTAGCCAGGAGTGGTTAGGAGACACCTGACTTTCACTTGTGGGGGTACCCAGGTTGTTTACAGTTGGGGTTTGGACAAAGCTTTTCCACACTGTTTAGTTGCTTGTTCCTTTCCACCCCACTGCCCTATTTAAGTTTCCCCTTTCCCACTTCTATAGAAGCACAGTAATAACTTGTCTCTTTCCTGGTCCTTGGTTCCCTTCCCATGAGTGAGATTATAGACAGCGGTGGTCCATTTTCCCTTCCCGTGAGTAAATAGACAGTTGCTGCCCATGCCTTTGAGAGGCTGCGGAGGTGAGATTTAAAAGTTTCTCTCAATCCCAAGGCCAGAGGGAGCTTCCCCCCGCAAGAGTGAGCTGGATTCACATAAATCACCATGTGTCAGATTAAAATCTCAACAATTTGGTCACAGGAACCAAGAGACGGTGTATCTTCCTTGCAGTTCGACTGACTGACCAGTCACTATTATACCCAGGGCAGCCATCTCCCAATTCACATTCAAGTTGAATATGGCTTCACTTTGAACCTTATATGATCTAAGAGGATCGAAATTGCCCAAGTAAATTTTTATGAATAATGGCTGTATGATTTTTCCCAGGTTCTCATCTTGTTACCTCCCCCAACCCTCTCCCCCTCTCTCTTCCTGGCATGAATTATATTTAATTCACAGCTGGTTTACTAGGCTTCTGCCTGCTGGATTCAACTAGACTCAAACATTTATGTAGACTTGAGCAGTCTTAAATAAGAGAAACAAGCTTCTAAGGCACGGAGGACCTTCGGAAGGCAGACTGCTCCTAGCCAGCCTCCCAGAGGAGCAGGCAAGCAGTCTCTGCAGATCGCTCAGCTTCTTTCTCATTTTTAATGTCCCAGGAATTCATTTCCACAGTTTGCCTCGGTCACACTCAGATATTTTAAGTGCCTTCTTGTTTGAAATTTCATGTCTTCAAATTGCTCCTCTAACGGGTATGATTTTCATTTCTCCGGAAGGTTTTATTTCCTTCTAAGAATGGGCCATCCTTTTTAAAACTCAAGGCATCTCCACTGTCCTTGGTGGAGGATTTGAAACCATCTCTGTGACTGTGGATCACTAAGTAATAACTATTGAGGGATAGGGCTGATGTAGCAAAGACAGACAGTCTCAAGGTGAAACTCAGTGAGTTCAAGCTTAGGTAAGCCCTCACTGGCCCAGCATACAGAGAAAGGAACCCTGTCAATACTTACAGGTGTCCCCTCCATTCTCTTTCCCAGTAAGTGGCCACCTGAGCTTCACTCTGGGGCCTGAATGATATGGGAGGAGCGTTTTTATTTTTCTCCCAGCCTCTGTGCTGGTTGGATTCCAATCTACTCACCTGTGACTGAGCTGTCTTCCTTTCTCCGCACCAG
Seq C2 exon
TGTCTACCGTGCGGTGCCCAAGCTTCAGCCATTACTCTGTATGTACCAGTAGCTGTCCGGACACCTGCTCGGACCTGACGGCCTCTCAGAACTGTGCCACTCCATGCACGGAAGGTTGCGAGTGCAACGAGGGCTTTGTCCTCAGCACCAGCCAGTGTGTCCCTTTGCACAAGTGCGGCTGTGACTTCGATGGCCACTACTATACCATGGGCGAGTTCTTCTGGGCCACCGCCAATTGTACAGTGCAGTGCTTATGCGAAGAGGGAGGGGATGTCTACTGCTTCAACAAGACCTGCCGGAGTGGGGAGGTGTGTGCTGTGGAGGACGGTTACCAGGGCTGCTTCCCCAAGCGGGAGACGGTGTGCCTGCTCAGCCAGAACCAGGTACTACACACATTTGATGGCGCCGCCTACGCATTCCCATCCGAGTTATCATATACCCTACTCAAGACCTGCCCTGAGCGTCCTGAGTACTTGGAAATTGACATCAACAAGAAGAAGCCTGATGCAGGGCCAGCTTGGCTCCGGGGTGTTCGGATCCTCGTGGCTGACCAAGAGGTCAAGATAGGAGGCGTCGGGGCTTTGGAAGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037705-Tecta:NM_009347:8
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:
PF0009420=VWD=PD(48.4=39.8),PF087426=C8=WD(100=39.8)

							
A:
NA

							
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=27.3),PF127142=TILa=WD(100=28.8),PF0009420=VWD=PU(49.4=38.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000040262





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000125370
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr11:121125873-121127751 
ALTERNATIVE
HsaINT0165599
(TECTA)
Human
(hg19)
chr11:120996582-120998460 
ALTERNATIVE
HsaINT0165599
(TECTA)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr15:32286265-32288206 
BtaINT0146764
(TECTA)
Chicken
(galGal4)
chr24:3543444-3544016 
GgaINT1027470
(TECTA)
Chicken
(galGal3)
chr24:3578755-3579331 
GgaINT0138316
(TECTA)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CTCCTCTGCCAAGCCATTCAG

				
R: 
CCTCTTCGCATAAGCACTGCA

				
Band lengths: 
352-2261

			

		

	





	
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"