Special

MmuINT0044835 @ mm9

Intron Retention

Gene
ENSMUSG00000003053 | Cyp2c29
Description
cytochrome P450, family 2, subfamily c, polypeptide 29 [Source:MGI Symbol;Acc:MGI:103238]
Coordinates
chr19:39396041-39399583:+
Coord C1 exon
chr19:39396041-39396182
Coord A exon
chr19:39396183-39399395
Coord C2 exon
chr19:39399396-39399583
Length
3213 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TTTTTATTGTGACCAACCAGCTA
3' ss Score
4.57
Exon sequences
Seq C1 exon
GTAAACCACATTGAACAATCAGAGTTTTCACTTGAAAATCTGGCAAGCACTATCAATGACCTCTTTGGTGCAGGGACAGAGACCACAAGCACAACACTGAGATATGCTCTCCTACTCCTGCTGAAGTACCCAGATGTCACAG
Seq A exon
GTGAGGACACAGTTGGTGGATCACAATGGTCCTGTAAGTTGCTGGAAAGGTGATACCAGTTTGGTGCATGTTGTTATTCTTAAAACAGTCTCAGACCTTCACCTTCTCTGCTACTGACTGTAATGAACAGTATGATTGAGATAAATGGACTCTGGCTGTAGTAAAAGCAATCAAATGCTGGTCAGTGCCTGGGTTTCCTATGAGGAATACGTTGGCAAGTATGGCCAGCATATATTGCCCTGTGGATACATTACCCTTTCATTCTTAAAAGTTTCTTAAAAATCTGTAGATCAGCTAAAATCTTATGGTCTCCAGTCCTTATTTTGATGAATCTAACTTTAGGGTGGAGAAAAGGAAACTTATCTCACTGAAGCATAAGTAGAAATCCTAGAATTTACTATGATTGAGAAAATGTACACACTGAGACATATTCAAAATATTTAGATTATCTAGCCATGTTCCCATTCATGCAGAAAATGTAGATAAATAATTGCATCACACTATAAGTCCATTTCCTTAACCTTCTGTTGGATAATGATTTTTTTCAACTCTACCAATAATATTTTCTTTTACAGGGTACTTTAAAAGAGATCCAGAATCTCAGCATAAATGAAACCTGCATTCACTTCTGTGCCCATTATATCCTACACAAAATAGCACAAATGTGATCAGAATTAATATTTTTAATATATGAGGAGATAACATTAAGGCCTCTTAAATTTATTAAAGCAAGGTATAATGTTCAAGAAAAAAGAACAGAAAAGATTATACTGAAACTTAAATATTAGATGAACATACATGCATCAAAAAAACAGGTTATGGATCTATATTTATGGATCAGTAAAGACTACTGTTCAACAGTAATAAAAGTTTAAGTAGAGAACAGAGTTCTATATAGCATGCTTATTTTGCTGATGTTTCCTCTCTACTCCCATTCATCAGAGGACTTACTTTCCAGATAAACTGAATTTTTAAACAAGGGTGTGGTGTTGACTAAGAATCCTTCTACCTGGGATATCAATGTTTAACAGGAAAGGAACAATGAATAGATATGAAAGGGGAGACTGTCAACATTTGATTCCTGTATTCTCCTCTGTGACCCTTCTTTGCTTTGTTCCATGAATGTAAGCATTAGGGTCAATACTCCAGACACACAGATTTAATAGTGCACCATATTTTACTACCTTAATAAAAAATACTTTCCAAATATTCATCAGAATGGAGAAAACATCCACCAAAGACATAGACTCATAGGTTCATGAATCTTCTCCTTATGTAGGCTCATGAAATGAAGTGTGAAACCCTTCAGGGAGATCACTGAGTCACATGTAAACTATTCTCATTGAGACTATACCAGAATTCTCAAGAGCAACCGATTTCTGATAAGTTTATAAGTTATAATACAGTTCAGATCTCCATGATTGCTTCCTCCCACTGCCAGTTCTTCATGAATCTGTGAGATGTTTTCACCCTATTATCTAAAGCAACATCACAACAAGTTATGGAATCCAGGAGTCTGAATAACTCATGAGAGAGAATAAGGTTATCAGAGAGGTTCCTGGGTCCCAGGTCTTGGAAGCCCCAAATTCAGTATTTAAATTATTGGTGCTGCAGGTGTGAATGAAAAAGGAAAGATGAAAGACAAACATTCTGTTGCCTAAAGCTCCCATTACTTGAGTGTAATTCCCAGCATCTTAAAACATCTTCCTCAATATTGCTTATAATTCTAACTCAAAAAGTGTAAAATTACAAACAAATAAAAATATATCCATTTATCAAAATGTGCTAATGGAAGGTAGTCATAATTTATTTTCATGACAATAAATAATATTTATTGACATGAATATTGTTTTGTGATTATATTTAATCTAACAATGAATTTTGGTATAACAAAGTATTATAATCCAATCTGCTGTTTTTTTCTTTTATTGAAAATTATTTTTTTCTCACAAGATTATGGTTTCTTCTCCTACTCTCTCCTATTCCTCCTTACCTCCCTCAACATACAGATCTACTTCCTTTCTGCCTCTCACTAGAAAACAAACAGGCTTCTAAGGAATAATGGTAATAACATAAAATACACTCAAATAAAATATAATAAGATACCAATGGAAAGTAAAGCATCAGAATTAGTCAAAATAAACAAAAAGAGCCCAACTGAAGGCCCAAGAAGAAGAGATCCATTCACTTTCACACCAAGGAGTCCCATAAGAACACTACACATTATAAAACATATTCAAAGGACTTAGTATAGACCTGTGTGTACTGTGTCACTCTGTATGAGTTCATATGTCTTTTGAGTATATGGATTTCATAGAGTTTTGTTTTCTTGGTGTTCTCTATTGCCTCTTAACAGAGCAACAACAACAAATAAAACTGTCTCTAAGGGTATAAAAAGGAGTTAAGAGAAGATATAAGTCACTGAAATTTGTCCTTGCTTCAAGCATTCTTTCTGTGTGTGTTTGATTTCCCTAACTGCTATACACCCTGTAGATATCTGGATCCACACACATCAGTTGCTGCCAACACTGACCCCCTCATTGGCTGGCCCTCTCAGTTTACCCTCTGTTGTCAAATCTGGTGTTTGGCAAGACAAAGACAGAGACAGAAAGACAGGGATAGAGACAGAGAGGCAAGACAGAGAGAGACAGAGACAGAGTGAGGCAGAGACAAATACAGACAGATAGACAGACAGACAGACACAGAGAGAAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATTTGGAGTGGCAGGATGGTCCTTTTATCTGAAACATACACCTGGGGCCCCTGGAGATGGCAGGTGCTGACATAGTAGTTGCTAGGTCTTTGAGAGAAGGGCAGATGGGATGGGTCTTGATTTTAAAACCTAACACTAATGACCTTAACCAAGGACTAAAATACATTGACTAATTATACAGTTTTATTTAATTTTTAATTACTTATACTGTATTTGCTGTTATGGCTACTAAGTAATAAGTATATGGTAATCCATTATAATATCTATGTAGAAGGAATGTGATTTAACCCATAACACATCATTTCTTTATAAATATGTGTATATATACTTTTATGCAAGAATTTAAAATTCAATTTATAATTTTTTTGGAATACCTGTATTGAGCTGTGTATGGCCTGACATTATGACAAGTATGTCATTTCCCCCCCCCCCCCCCGTTTTTTCCCACTTTTTATTGTGACCAACCAG
Seq C2 exon
CTAAAGTCCAGGAAGAGATTGACCGTGTGGTTGGCAGGCACCGCAGCCCCTGCATGCAAGACAGGAGCCACATGCCCTATACAGACGCCATGATTCATGAGGTCCAGAGATTCATCGACCTCCTCCCCACTAGCCTGCCTCATGCAGTGACCTGTGACATTAAATTCAGGAAATACCTCATCCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000003053-Cyp2c29:NM_007815:6
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=0.048
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0006717=p450=FE(10.3=100)

							
A:
NA

							
C2:
PF0006717=p450=FE(13.5=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000003137





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000127503, ENSMUSP00000135863
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr10:95043078-95045809 
LOW PSI
HsaINT1010479
(CYP2C8)
Human
(hg19)
chr10:96803004-96803568 
HsaINT0044274
(CYP2C9)
Rat
(rn6)
chr1:147808409-147810999 
LOW PSI
RnoINT0044331
(Cyp2c6v1)
Cow
(bosTau6)
chr26:16173206-16175260 
BtaINT0046186
(CYP2C87)
Chicken
(galGal4)
chr3:108414407-108415261 
LOW PSI
GgaINT0083454
([1])
Chicken
(galGal3)
chr3:111600881-111601735 
LOW PSI
GgaINT0083454
(E1BY32_CHICK)
Zebrafish
(danRer10)
chr15:100085-101205 
LOW PSI
DreINT0054323
(cyp2y3)
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"