Special

MmuINT0034845 @ mm9

Intron Retention

Gene
ENSMUSG00000033671 | Cep350
Description
centrosomal protein 350 [Source:MGI Symbol;Acc:MGI:1921331]
Coordinates
chr1:157715801-157719199:-
Coord C1 exon
chr1:157719039-157719199
Coord A exon
chr1:157715938-157719038
Coord C2 exon
chr1:157715801-157715937
Length
3101 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TCTCACTCTTCCAAACGTAGACT
3' ss Score
7.06
Exon sequences
Seq C1 exon
AAACCACATCTGACCAGAGTGACATTGAAGGGAGGATCAGAGCTCTGAAGGATGAGCTGCGGAAGAGGAAGTCAGTCGTGGAGCAGCTGAAGAGGGAGCAGAGGAAGAGACAGAAGGAGAGACTGAAGGCCCAGGAGGCCAGTCTGCTCAGACAGCTGGAG
Seq A exon
GTGAGAGGGGGATGGGTCAGTGGGCAAGGTTAGTTCCTGCCAGAAGCTCAGGTGTTTACTGCTAATAAAGTAGTCATGTAGTGCACATTTTATCATCCTTAAGAACAAATCCGAAGATATCTACAGTATTACACTAAATATTAAATACTAAAATAAAAAATTTCCTGATTATGGTACTGGCCAGGCAGTGGTGGTGCACACCTTTAATCACAGCACTCTGGAGACAGAGACAGGAGGAGTTCTGTGAGTTCAGGTCCAGCCTGGTCTACAGAACGAGTCCCAGGACAGCCAGAGCTACACAGAAAAACTATGTCACAAAAAGATTATGGTGATAAAAAAGATTATAATCTCTTAAAAACATTAAGATGGATGGATAGACAAATAGATAGATTTAGATATTCACACTGTTGTTGCCAGTCTGTTCTAGAAAGAAGGCCACACGACCCTTGGGCTGTTTTTGGACAGCTCTTAATTGATAGCTGCAGTCGCTTCCCTCCTAAGCAGCCTTCCGTGTTCTGCCTGATACGAAACCTGATTTTGCTGCTGTCCTCCTCCTGTCTCTTCCTATAGTCCCGGTTCCCTGATGTTCTTCTACCAAGGCCCCTTTGTTCTATTCCCTTCCTGCTGCCATTAGTCTAGGGCCTGGCTCGGGTTCTGAGGCCCCTTATCTGTATTATCTGTACAGTCTCTTGGTTATTACTGCCTCTGGCTGATTTTTCTATATATCTCATCTCCCTCTGTCTCTTTCTGTCTGTCTGTCTTCCTCTCCCTCTTCCCCTTTTTCCCTGCCTCTTTTGCCTTTCTTCCTTTCCATTCTTTCCTTCCCCCAGCCTCCTCTGCCTCCCTACAGCCTCTCCCTGCTGCCCTAGCCTCCTTGCCCTAAGTCATGGTATTCATCATAAAAGCCATCTGAACTCCTGTTAGGACAGCAGTCTGTCCTCATGTCACCGCTTCTACCTGGATACTTTCAAATTTTCAAAACATTTGTAACTGTTAGGCCTTCAAGCTTACCAAGTGTGAGAAAGTGCATTGCTGTGTTGAACCAAATTATCTGTCCTTTTAATTTTTACCCATTGAGTTCCTTACGAAATTCAAATGGCTATTTTTATATAACAGGAACTCGGATAATTGAATGCATTTTCTTTAATCCTCATAGGAGTGAAGTATGGGTATTACCTCTGAGTTTCAATAAGATTAAGGATCCAGGGACACACAGCCCACAAATGATAAAGGCAGGATTTTTATTTATTTCTAATTCCAAATTCTATGTTTTCCCATGAAAATAGGCCTTTTAATAAGTGTGGAAATAATAAACATCCGCATGGGTGCATCACATGCTGACAGAGCAGGCGTGGTAACTAGTGTTTTGAAGTCAGAAGAGTGGTTATAATAAATAACCAGCCCTAGATAGCCACACATTCTTATAATCAGCATAGAAATCTGAAATAGAAATGGGAGTTCAAATCCACGCTGACCCACATAGTGAGTTCCTGATCATTCTGAGCTATATACTGCACCTCTAGCTCTAGGGAATTTAGAATAAGCAGTGGCTCTACTGGGAGTTCATGTAGGAAAGCAGTGGGAGAAAGTTTAAAAGTGGAGGTGACATTCAGGAACTTAATGGCTAGACTAAGAAATTTGAGCTTTATCTGATTAGTCATGCAACTGTGAGCCATTAAAGTCATACTGGAAATAAATTACGAGTCAATAATGTTGCTAAAAAATGCTCATTGTTATAATCCTAGTACTCGGGAATTTGAGGCAGGAGGATCTCAAGTTTGAGCTTAGTCCATGCTACATACTAAATCCTGTCTCAAAAAAAAGTTACAAAGTTGTAAAGAATATTTCATTGATAGAAATGTCCAGAAAAAGTGCCACATGATCCATCTCACTCAGCACTTGGCTGAATAGCTAAGTACAAATGAAAGGGACGTTATGTCATAGAGAAATAAATATACATGGCAATTTATATGAAAAAAGATTTATTGGTCACAGATTTAATAAACTACATTAGATCGGTATTTCTTTCAGATCTGAGTAGCTATACCTTCTATAAAGACCTAGCTAGATGGCCCAGCATGCATATATGTTTAGTTAATGATTAATACTAAAATTTGTCAAATCATTGGTAATTCCGATGAAGGTAATATGGAAGATAAGAGTTATCTACCTATTTAGTAGGGATTTTAGTCCAGACATTAAGAATTTGTAATAATTAGCAAGGATCCATCCATCATTCTTTCATTCTCTAAAGATGTATTGACTAGAAATCTTTTTAGTCTAGTTTAGGCCAGACATAAATACAGCCTGAATAAAAAGTGCTGAGCTTTTTTGAGCTACTACACATAATAGTTACACAAGTGAGGTTAGCCCTCCAAGTGGAAGAGACATGTACTAGAGAGACGGTCCATCTTGAATGCCATACTAGTGATAGTTACGATGTATTAAAGTTCTGGTGGTTAGTAAAGAGTGGGCATTTTAATAAGCAGGCAGCAGTGGTAGTGATTCTGACCTTCTGACTAGTTGTACTCAATTTCCCCTAACTTCTATTTCTTAAGAAATTTACAGCCAGTGAACCTCAGAAACAAAACAACATACAAGGCAGTGTTGTAACTCAAGTCTTTAGTCCCAGTACTAGGAGGAGGCAGAGGCAGATGGGTCTCTGTGAATTCAAGTCCTGCTCTACATAGTGAATTCAAGGTCAGCTAAAGCTACCAACCTCAATCACCAATGCACACACCCCAAAGCCACAAAGTAATAGTGTCTACTGTAGAAAATAGCATATAACAAGTTAACGATTTCAGCGTGCCTGGGTGGTTATCACTCATAATATTTTTGGATTGAAACTATAATTTCTTGCTTCATTTCCTATAGTGGTGAAGATGTGGCGGGGAGCAGGGAGGGAATCTTTATAGTCTGTCTTTTTACTAGTTGAATATTTAAATTACGCTATTTAAAAATTTTAAATATTCTTATGATTTAAAATACCCTTTAGCAAGCGCAAGGCCCTGGGTTCGGTCCTCAGCTCTGGAAAGGGTAAAATAATAAAATACCCTTTAGAACAGTGTGCATAATAACTTCTCTCACTCTTCCAAACGTAG
Seq C2 exon
ACTTATGATGAATTCATTAAGAAAACTGAAGGTGAACTCAGCCAAGATCTAGACATATCCCCAACATCCAAATTTCAAATGAAAACTCTCTCCTCCGTATCCGAAAAACCCAAAATCAAGCCACACCCACTACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033671-Cep350:NM_001039184:31
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.889 A=NA C2=0.696
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000120085





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:180084179-180087577 
LOW PSI
HsaINT0033808
(CEP350)
Human
(hg19)
chr1:180053314-180056712 
LOW PSI
HsaINT0033808
(CEP350)
Rat
(rn6)
chr13:73519763-73522773 
Cow
(bosTau6)
chr16:62752651-62755397 
LOW PSI
BtaINT0036796
(CEP350)
Chicken
(galGal4)
chr8:5996141-5996615 
ALTERNATIVE
GgaINT0038301
(CEP350)
Chicken
(galGal3)
chr8:6315965-6316439 
ALTERNATIVE
GgaINT0038301
(CEP350)
Zebrafish
(danRer10)
chr8:14528702-14528854 
LOW PSI
DreINT0045200
(cep350)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
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"