Special

MmuINT0032000 @ mm9

Intron Retention

Gene
ENSMUSG00000008845 | Cd163
Description
CD163 antigen [Source:MGI Symbol;Acc:MGI:2135946]
Coordinates
chr6:124270373-124275590:+
Coord C1 exon
chr6:124270373-124270696
Coord A exon
chr6:124270697-124275278
Coord C2 exon
chr6:124275279-124275590
Length
4582 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
GTTTGTTTGTTTGTTTTCAGACA
3' ss Score
9.17
Exon sequences
Seq C1 exon
AGTTCATGTCTCTGAGGCTGACCAACGAAGCCCACAAAGAAAACTGCACAGGTCGCCTTGAAGTGTTTTACAATGGTACATGGGGCAGTATTGGCAGTAGCAATATGTCTCCAACCACTGTGGGGGTGGTGTGCCGTCAGCTGGGCTGTGCAGACAACGGGACTGTGAAACCCATACCTTCAGACAAGACACCATCCAGGCCCATGTGGGTAGATCGTGTGCAGTGTCCAAAAGGAGTTGACACTTTGTGGCAGTGCCCCTCGTCACCTTGGAAACAGAGACAGGCCAGCCCCTCCTCCCAGGAGTCCTGGATCATCTGTGACA
Seq A exon
GTGAGTATCCATTTTCAACAGGAAATTTCCATTCTACTCACAACCCCCACTCTGACTGGTTTTCTGTCTCTGGTGTTTAGCTGTGGCCCTAATTTTTAGTCTTTTACCTATTCATCAAGATCATATATTAATAGTGACATTACAATAAGATACCTCATAAACTTTAAGATGTTCCAGGGCTTTATAAATGAAAACATTTTAAAAGCTGTTTTTAAATTTCAGGTTTTTTTTTAATTTTCTGTAAAGCTTTCTTTAAAGAAGCTTAAAATCTCTCAACTGTCTTGTTTTTTGCAATATCAAAATAAAGCACCTTTAATTAAGAGTGAAGACAGAGAGTATAACCATAATTTTTACAAGGCAAAAACAAGTTTTAACAATATAAGCTATTTATTGTTTCCAAAATCAATATCAAGTGGCTTCCTTTTATGTTATAAAGTTTAGCTGCCCAGAAGAAAAGTTATCGTATATGAATATATGAAGGTGCAACTTAATTACCTCTTACTTATTTTTTTTTAAACTAGTTTTTAAGACAGGGTAGAAATTATTTAAAAATCCTGTCCCAATTTAAAAGTGTCTTTGAATACCTGTCCCCCTGGTTGAGCTCATGCCATGTGTTGCTGCCCAGAACGGCTCCAACCCTGAGTTATGAGTTTTCAGTTAACTTTTTGTTACAAATGTTACAGATTTTCAACCATACCCAATAACTACAACCAAGATACAGAACATAGTAGTCTCCTACATTTCAGAGCAGGCAGAAACAAACACGATGTGACCACATACATTATACATTTAAAACAGACAAAAATTTCCTTACTTCCTCCAGCTGTTAATTTCAAAAGAGGAGCACTTTGCTACCTGCCGAGTCCAATTCTCATGGGCGCAGTGGTTCTGTAGCGGGAGTAGCCACTGGCTTCCTGACCGGAGAAAGCTGAGGAGTTGCTGGTGCCACTTTAAGAGCGGCTTGTACAGATGCCAACCACCCACACACACCACCCCCAGCTTCGTTGTCAGCTTGATCCAGGGGAAGAAGGTGGGACTATGCCTGCAGTGCTCAGCTCCCTGCTGCGGGTGCAGGGCTCCAAGAGCAGTATCAGTTTAATCAGTTTTTGTTGTCCCGATTCAGCCTCTTTTTCTGACAATCCTTGAGATGGGTTAAGCCTAAGTCAGCAGATGAAGTATGGCCCTTTTTTTTTTCCGAATATGAAACAGAGCAACAATCAAGCTAACCGAAACTATAGACACAAACTGACAGACATGGACAATCTGTCATGCCCACAACCAGAACCAAATGTTACCCCAATGGAAACCAGTATGGGACAGGATGTCTTAGGTCTATTTCTGACCCTATGTCCACTTTCTCCTTTCTTGGATCCCAGACAGGTTCCCACCAGAAACCAGAATACAGATATAAGCTTACTTCCGGTTAGTGTTTGGCCAGAACGTTACGACGTTTTTAAGCTCCAAAACCACAAACATCTGTGTCAAGTTATCCCACCAATCAGGATTTAGGGATAGGGTACTTCCTTAGGAATGGGTCTTTGTGGTTCCCGTCGGTTGGACTATTTAACTCTGGCAACTTGCCTAGCATTCATGTCTCAACTTGTCAATCATGTCAGTTACCCACATACATGTATCTTCTGCCAAGCAGGATGGCAGTTACTCAGGAAGGCCTTGGGAACTTAAACTTTATTTGACCCCTATTCAAAATGGAAGTTTTATTCAAAATGGCTTCAGTTTTGTTCCTTCTTGCCTTGCTTTCTGAGAAAGCATGAGATTTTATTTCCCTGTTCAAACTCTAGCTTGATTTGTTAGGTCTCATTAGGCAGTGATGGGTAACTTCCAGATATACTCAGGAATGGAATAGTTGGTTTTATGTAATTGTTATATGTATATATGCACATACCAGATCAGTAATCATTATTCCAGATCTTTGTATTCATGTACTTGAAAGTTCTATTTGATTGATTTCTCTAAGAAAATCAAGAAACAGAGAATAACTGGTTGATAAAAGGCCTACTTTCCTTTCTCTACATTTCTTCCAAATATTTAACCTTGCTACACTGGTATAAGACAAAACTCAGAATGGTCAATCCTGGACTCTTTTCATTATGCATCTCCTTAACCTAGGAAGATGATATTTCTGTCCACATCACTTTTGTCCATGTGAGGAAATTTAACTTTCCACATGAGTCATGTCAACTTCATTCACCTGCAGTTTCTTGAGTCACACTATGATTCTTTTAAAACAGTATCTTTAATAGTTCTTTGAAAACTTCATGCTGTGTGTTTTGATCATATCCTCCCCCCTCTCTCAACTCCTACAAGATCCACCCCTACCCCTCTATGTACTCAACTTTGTCTCCTCTTGTATTTTTATATCTCAGTAAGCCCAGTTTGTGCTGCCCAGATACTCATGGGTGTGTGTTCGACCTTGAAGCTTGGTCTTACTAGGGTCTATACCCTTTAAGACAATGATCATCCCTCTCCCAGAAACTATCGGTGACTGATAGCTCCTCAGTTGGGGTGAGACTTCACACCCACCATCCTTCTCCATGTTGGAATTGTTGTCTGGCTAGAGCTTGCACAGGACTGGTGCATGCTGTCACAAATGCTGAGCTCACATGTGCAAGTATCCTGTTGTGTCTAGAATATACTGTCTCCTTGTAGTCGCCTACCATGTCTGGATCTTACAATCTTTCCACCCCATCTTTGGCAAAAAAAAAAAAAAAAAATTCCTGAGCCTTGACAGAGGGGTAAATGATAGACATTCTATTTAAATCTTAGAAGCATGGCATCTGTTATTCTCTGAATACTGACAAGTTGCAGTTACCCTCCCCATACTCTTTCCTCTACCCTTCACTCCCATTTCACACCCCATTTAACCCTTCCCTTTCCATTATTCCGGTTTGCCCGTGTATATCACTGCATTCTATCCCCCCTCTCCATGGTCTCATCTTATTCTCCTGACCTCGATGGGTTTCCCAAATGAAATACACATGCCCAAAGACTCAAAGCTAGAACTCACAGACGAGACAAAGCATTTGTGTGGCATTTGTCTGTGTGGGTTGTCAGCTCACACAGGATGATTGTTTCAGGTTTCTTCTATTCGTGTGAAATGGTCGGAATTTCATTTTTCTTAACAGCTGAAGAATATCCCAGTGTGTAAGTGTACCGTTTTTTCATTTTCTACTCATCAAGTGGTGGACATATAGGTTGGTTCTATTTCCTGGTTATTGTGACTAGAGTAGCAATGATCATGGATGACCAAATGTCTTTATAAGATATAAGGGGCCTTTGGGCATATGCCCAAAAGTGGTATAGCTATATCATCTGGTAGATCGATTTCTAGCCTGTTGAGGAATGTCCACATTGATGTTCATGGTGTCTGTACCAATTTGCTCTCCTACCAGCAGTGGAAAAAAAAATTCTCCTCTTCCCTAAACCCACACCAGCTTCTGCTGTCTTTTGCTTATTTTTCACTTTAGCTGTTCTGACTGGAATAGAATAAAATCTTAATGTAGTTTTTATTTGCATTTCCCTAATGACTTGGGATGTTAAATCTTTTCAAAAATATTTCTCAGCTATTTGTGTTCCATCCTTTAAGAATTATTTGTTTCATCCCTTGCCCTGTTTTTTAATTGGGTCATTTGTTTTCTTGACATTAATTTTCTGAGTTCTTTCTGTGCTCTAGATACTAGCCCCTTGTCAGGTTTATAGGTGGTAAAGATTGTTTCCTATGCTTCAGGCCCCATTTTCACCATAATAATGATGTACTTTGTTGTACAGAAGTTTTCTGTTTCGTATGGTCAGTCCCATTTGTCAAGTGTTTGATGAAATACAGCCAGTTTGATAAAAGGACATATATATTTATAAAAGAGGAATTTTTATGAATAGTGTTATTTTTAAACCCTGCATTAGTTTGTATATATTTTATTAATTCTTGGAGAGTTTCATACATGCACACAGTATATTTGGATTATATTCATCCCCTCCACTCCTCCTCCAACTCCTCTCAGATCCAGCTCCTCAACTCCCCTTCCAACTTCATGTCCTCTTTATTGTCTTTCTTCACAAACCACTGAGTCCAGTCTGCTACCCATAGACTCATGGGTGTAGGTCCATCTACTGAAACAAGATCAACCTACCAGGGATCACATCCCCAAAGAAAAGTGACTCAACGGCCTCCAAGAGCTGTCAGCTGCCAGTTCTTCCTCTCCCTGCTCCACACTGTAATGTTGACTGGCTTGATGTGCTGCAGGTAGCCACAGCTGCTATGGATGCAGTGGTCCTGCCATGTCCAGAAAAGATTGCTTTGCCTCGGTCTTTCTCAACCTCTGAGCCTTACAATCTTTCCACCTTTCCTGCCACGATGGTCCCCGAGCCTTAGAAGAGAGGAGTGTACTGTAGATGTCTCATTTATGGCTGTTACTCTCTACACTTTGTCCAGTGCACATTAAATAGTTTTTAAAGCACTCAAGTCTCTCTGTTTTATAGTCTTTCAGAAGCTTTTAGTTCCTCAGGAATAAGCCATATGCCTCTGTTGTTTATTTGTTTGTTTGTTTGTTTGTTTGTTTGTTTTCAG
Seq C2 exon
ACAAAATAAGACTCCAGGAAGGGCATACAGACTGTTCTGGACGTGTGGAGATCTGGCACAAAGGTTCCTGGGGAACAGTGTGTGATGACTCCTGGGATCTTAATGATGCTAAGGTTGTATGTAAGCAGTTGGGCTGTGGCCAAGCTGTGAAGGCACTAAAAGAAGCAGCATTTGGTCCAGGAACTGGGCCCATATGGCTCAATGAAATTAAGTGTAGAGGGAATGAGTCTTCCCTGTGGGATTGTCCTGCCAAACCGTGGAGTCACAGCGACTGTGGGCACAAAGAAGATGCTTCCATCCAGTGCCTCCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000008845-Cd163:NM_001170395:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.092 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0053013=SRCR=WD(100=89.9)

							
A:
NA

							
C2:
PF0053013=SRCR=WD(100=93.3),PF063657=CD34_antigen=PU(10.0=8.6)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000108160





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000032234
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr12:7483676-7485095 
LOW PSI
HsaINT0030802
(CD163)
Human
(hg19)
chr12:7636272-7637691 
LOW PSI
HsaINT0030802
(CD163)
Rat
(rn6)
chr4:156767339-156778460 
LOW PSI
RnoINT0031930
(Cd163)
Cow
(bosTau6)
chr5:102274618-102275391 
ALTERNATIVE
BtaINT0034304
(CD163)
Chicken
(galGal4)
chrLGE64:640772-649751 
GgaINT1001363
([1])
Chicken
(galGal3)
chr1:80924089-80924158 
GgaINT0112120
([2])
Zebrafish
(danRer10)
chr4:11121612-11122200 
DreINT0136693
(si:ch211-161n3.4)
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"