Special

MmuEX6077020 @ mm10

Exon Skipping

Gene
ENSMUSG00000024330 | Col11a2
Description
collagen, type XI, alpha 2 [Source:MGI Symbol;Acc:MGI:88447]
Coordinates
chr17:34039437-34053247:+
Coord C1 exon
chr17:34039437-34052517
Coord A exon
chr17:34052941-34052985
Coord C2 exon
chr17:34053194-34053247
Length
45 bp
Sequences
Splice sites
3' ss Seq
TACCCAGCCTTGTGTTTCAGGGA
3' ss Score
7.59
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
Exon sequences
Seq C1 exon
GAGCTGGCTGGAGTGATGGGAACTGATCTCTAGAGGGGAAGTCGGGACCTCAGAGTAAGTCATGGAGGCTGGGAACTCAGGGAAGGGATCAGTATCTGCTCCTATGAGGGACCTGAGGTCCCCTTTGACTGCTCTCTCCGTTTCCAGGGTGATACAGGTGCTCAGGGCCTTCCTGGGCCTCCTGGTGAGGACGGAGAGAGGGTAAGTGCCTTGGTCAGGGCAGGGGCCAGACTCAGGAGAAGTCTAGAAGGCCAGGTTGGTTCATTCCGTATTCCGTACGCCTTCCTTTTCCAGGGTGATGATGGAGAGATTGGGCCACGGGGGCTGCCTGGAGAGTCGGTGAGTGTCTGAGATGCTCTGGGGAAGCCACAGGAAACAATGTGCACAAAGGGGGAACACATTTCCCTGTCACCCACTGATGCTGTCCCTGTCAATTCTGAATGCAGGGACCTAGAGGACTCCTTGGCCCTAAAGGCCCGCCTGGTATTCCTGGGCCGCCG
Seq A exon
GGAGTCCGAGGCATGGACGGTCCCCACGGCCCCAAAGGGAGCTTG
Seq C2 exon
GGACCTCAAGGAGAGCCAGGACCTCCTGGACAACAGGGTACTCCTGGGGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024330-'29-35,'29-29,33-35=AN
Average complexity
A_S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.429 A=1.000 C2=1.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
PF0139113=Collagen=FE(18.7=100),PF0139113=Collagen=FE(18.9=100)

							
C2:
PF0139113=Collagen=FE(19.5=100),PF0139113=Collagen=FE(18.5=100)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000084772





     
                   









    
Main Skipping Isoform:
ENSMUSP00000122082





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000109890, ENSMUSP00000109893, ENSMUSP00000115026
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr6:33177662-33177706 
HIGH PSI
HsaEX6046556
(COL11A2)
Human
(hg19)
chr6:33145439-33145483 
HIGH PSI
HsaEX6046556
(COL11A2)
Rat
(rn6)
chr20:5318587-5318631 
Cow
(bosTau6)
chr23:7304799-7304843 
HIGH PSI
BtaEX6096812
(COL11A2)
Chicken
(galGal4)
chr12:9073933-9073992 
ALTERNATIVE
GgaEX1016957
(COL7A1)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr19:7276912-7276956 
HIGH PSI
DreEX6071884
(col11a2)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TGCACAAAGGGGGAACACATT

				
R: 
GAGGTCCTGGCTCTCCTTGAG

				
Band lengths: 
144-189

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Ribosome-engaged transcriptomes of neuronal types
  • 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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