Special

MmuEX0012187 @ mm9

Exon Skipping

Gene
ENSMUSG00000001506 | Col1a1
Description
collagen, type I, alpha 1 [Source:MGI Symbol;Acc:MGI:88467]
Coordinates
chr11:94806814-94807696:+
Coord C1 exon
chr11:94806814-94806912
Coord A exon
chr11:94807125-94807232
Coord C2 exon
chr11:94807589-94807696
Length
108 bp
Sequences
Splice sites
3' ss Seq
TAATCTTGTTTCCTAAACAGGGT
3' ss Score
8.47
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGCGAGAGAGGTTTCCCTGGTGAACGTGGTGTACAAGGTCCCCCAGGTCCTGCTGGTCCCCGAGGAAACAATGGTGCCCCCGGCAACGATGGTGCCAAG
Seq A exon
GGTGATACTGGTGCCCCCGGAGCTCCCGGTAGCCAGGGTGCCCCCGGTCTTCAGGGAATGCCTGGTGAACGTGGTGCAGCTGGTCTTCCAGGTCCTAAGGGTGACAGA
Seq C2 exon
GGTGATGCTGGTCCCAAAGGTGCTGATGGTTCTCCTGGTAAAGATGGTGCCCGTGGTCTGACTGGTCCCATTGGTCCTCCTGGCCCTGCTGGTGCCCCTGGTGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001506_MULTIEX1-16/19=15-17
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
Alternative protein isoforms (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=1.000 A=1.000 C2=1.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
PF0139113=Collagen=PU(53.8=97.2)

							
C2:
PF0139113=Collagen=PD(43.1=77.8),PF0139113=Collagen=PU(35.1=55.6)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000001547





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000103383
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr17:48268744-48268851 
HIGH PSI
HsaEX0016395
(COL1A1)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr19:37098302-37098409 
HIGH PSI
BtaEX0009623
(COL1A1)
Chicken
(galGal4)
chr12:9076253-9076334 
Chicken
(galGal3)
chr7:579537-579644 
HIGH PSI
GgaEX1016681
(COL3A1)
Zebrafish
(danRer10)
chr3:23101161-23101268 
ALTERNATIVE
DreEX0023075
(col1a1a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CGAGAGAGGTTTCCCTGGTGA

				
R: 
CAGCAGGGCCAGGAGGAC

				
Band lengths: 
188-296

			

		

	





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






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