Special

MmuINT0002331 @ mm10

Intron Retention

Gene
ENSMUSG00000044433 | Camsap3
Description
calmodulin regulated spectrin-associated protein family, member 3 [Source:MGI Symbol;Acc:MGI:1916947]
Coordinates
chr8:3607791-3608301:+
Coord C1 exon
chr8:3607791-3607890
Coord A exon
chr8:3607891-3608188
Coord C2 exon
chr8:3608189-3608301
Length
298 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
ACCCCTCCCCTCCCCTGCAGGGC
3' ss Score
13.07
Exon sequences
Seq C1 exon
GTTCACGGCTCAGCAAGGTCTATTCCCAGTCCACGCTGTCCCTATCTACGGTGGCCAACGAGGCTCCCAATAACCTTGGTGTGAAGAGGCCCACCTCTCG
Seq A exon
GTGAGTCTATCTGGAACCTAGAGCAAGATATGGCGGGACCGCTGGGATGTGTAGATGGAAGGAAGTACAGGAACACAGATGGGATTTGGGGGAAACTGACTCAAGTCTGGAGGATGTGCCCACATGCAATGTAGGAGGTTGAGCATATGGAGCAGCTGTCTATGGACTTGTGGCAGCATGCAATATACATGCCCCTCTCCTCTGCAGTGCACTGGGCTTGCCTCGTCCCTAATCCTGTTGTACCCTGGGAGGCTTCACACACTACTGACCCCAGCTTCACCCCTCCCCTCCCCTGCAG
Seq C2 exon
GGCCCCTTCTCCATCAGGCCTCATGTCTCCAAGCCGCCTGCCTGGCAGTCGAGAACGTGACTGGGAGAATGGAAGCAATGCATCCTCCCCAGCATCAGTGCCTGAGTACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044433:ENSMUST00000171962:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.780 A=NA C2=1.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF086836=CAMSAP_CKK=PU(0.8=2.6)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000146896





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000058958, ENSMUSP00000125993, ENSMUSP00000146359, ENSMUSP00000146565, ENSMUSP00000146772, ENSMUSP00000146852, ENSMUSP00000147126, ENSMUSP00000147209
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr19:7616623-7617325 
LOW PSI
HsaINT0086971
(CAMSAP3)
Human
(hg19)
chr19:7681509-7682211 
LOW PSI
HsaINT0086971
(KIAA1543)
Rat
(rn6)
chr12:2156160-2156464 
LOW PSI
RnoINT0028798
(Camsap3)
Cow
(bosTau6)
chr7:17687095-17687483 
ALTERNATIVE
BtaINT0031112
(CAMSAP3)
Chicken
(galGal4)
chr17:8204340-8204690 
ALTERNATIVE
GgaINT0125781
(CAMSAP1)
Chicken
(galGal3)
chr17:8899346-8899696 
LOW PSI
GgaINT0125781
(CAMSAP1)
Zebrafish
(danRer10)
chr3:53193342-53193428 
LOW PSI
DreINT0005686
(CAMSAP3 (1 of 2))
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TTCACGGCTCAGCAAGGTCTA

				
R: 
TGATGCTGGGGAGGATGCATT

				
Band lengths: 
196-494

			

		

	





	
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
  • 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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