Special

MmuINT0095843 @ mm9

Intron Retention

Gene
ENSMUSG00000026390 | Marco
Description
macrophage receptor with collagenous structure [Source:MGI Symbol;Acc:MGI:1309998]
Coordinates
chr1:122385109-122387534:-
Coord C1 exon
chr1:122387490-122387534
Coord A exon
chr1:122385154-122387489
Coord C2 exon
chr1:122385109-122385153
Length
2336 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GAGTCCTTCTCATCTCACAGGCC
3' ss Score
8.44
Exon sequences
Seq C1 exon
GTGTCCAAGGACCCCAGGGCCCACCAGGCAGCAAGGGAGAGGCAG
Seq A exon
GTGAGTAGGTGTCACAGGAACACACAGTGGGCTTTCTCGGGGACAAGGACGCACACCAGAGTCTAAACCCTGTGGGATGGGCCTGCCCAAGGGGAGGCAGCTTGTATGAGACCTGGGGTGGGCTCATAGGTAAGGGGGGGTTCCACAAATGGGAGTATTGCTCAGTGGTGCCTCAGCCTGGATAGGTGATAGGGTGTGGACATCACAGTAGAGCCTTCGCTGCCGAGGACTGCAAACCTATGAACCAGCAGGGAAAAGCTCAGCTCCATGATCCTGCAGTGGCCAAACCTGCTTTCCTGATCGTGACTCCCTCACTATCATGGACCTCATTTTTTGCTTTATACATAAAATAAAGCTGAGACTTCTGCGGGATGTTGTTCGGGATATACATTGCCCTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCCCCTCTCTCTCCCCCCTCTCTCTCTTTTTCAAAAGCCTAGGATAGTGACCATCAGTCTTCATGGAGCTCCCTCGGTACCCTATGGTTGAGTCTGCTGCAGTGGAATGATGCAGAATCCTAAGACCTTTTAACAGCCAGGAGCAGAGCCAGCTAGTCTAGATAAAAGGGGAATTAAAACAAACCAGCAGGCTTGCCCCTCCAGAAAGCTCCAGCAACCACAAGAGGTCTGGTGAGCTGAGAAAGCTACTTCTAGGAACTGGCTCCATTAGGAAGGCAGTTAATAAGATCCCCTGGAACCCATTGTTCTACATCAAGACAGGGTTTCTTCCAAAAGACTTTAACAAGGAAGATTATAGTGTGGTGAGGAGTATCTGTAGACACTCATACTCTCACCCACTGTATCACCACATGCTCTCTCTCTCTCTCATACACACATACCCACTTATTTACAAGCTCATGTCTGCACACATCATTGTGTATTCACACTCATGCTACATACACGCACACATGCATACAGAGCCCTACACTCACTCATGCACACATATGAACACTGGTGCCTTCACATGTATGCATTCTTATACTAACACCACACACAGAGCCACACCCTCATGCACATGTATGGACACATGTATATGCACACATGAATACGTATACTCACCATATACTCATGCACTCGTGTGCATGTATGAATACACATTTTTGGCACACATACATGCTCACAATACACAATCATGGAAATACACACTCGTATATTCATGCACATGTGTGAGCACACATTTATGTCCACATGCAGCCTCGCTCTCAGGTGCTCACACACTCATCATGCACACACATAGGCTTCTGCCCATGCTCTAGTGCTCACACTTACACTCTGCATAGTCATACTCATGCGTGTGCACCTGCAGATACTCACATGGCCTATGCACAAACAGCCTCACACTCACACAGCAGGCAGGCCACTCAGAGGGGATCTAGTCTCCCTTCTTGCAACTGAGAGAGGGGGGGGGCTTGAAGTAGGTTCCCAAGATGCCAGAGACGGCAGCCAACCAGGCCACCTGGAAGGACAGGCTCAGCCCATTCCCAGAGGCACAGTCTGATGTCTCACTTCTTGTGGCTCCAACAGGCACCTGTAGAGGACAGGAGAAAGCTGGGCAATCTTATTAACCCCCCAACACTCTGCTCATGCTTCTGGAACCCACAAACCTAATGGGAAGGAGAAGTATCTGTGATGGAGACCATAAGCCCAGAGCAGCTGGCATCCCCGGGAAAGGCTGGAGCTCAGGCATCCCAGCAGGCCTTTCTCCACAGCTTGCCCGGCAGCCTCTCTTCCCCTTCCCTTCCTCACCCACCCTCTGGGACCGCCCCATTTCTCCTCATGCTCACTATGCTGACCAGGTCCTCTTCCCACTAAGAACAGCCTGCACTTCAGGATATAACGTGCATGCGTGTCCTTCCAGGTGGCCTGGTGTCGCAGGAGGGAGCCATTGTTTGCCAATTCCACTTATGTCCTGGGCACAGGATCATTAGTGAGGCACCTGCAGAGGGCCCAGCCCTCACCAGCCTCATTTTACAGATGAGAGCATTGTGGCAAGGAATACTGAGGTGTCTTTTCCAAGGTCACCTACCATGCTTGGAGTGGCAGCCATGGTTCAAACCCACTTGCTTTGTTCTCTAGCCTTCTTCCACGACTACGCACTGGTCCAAGCCTTTGAGAGAAGTCTCTTCTGTCTGGGCCTGCCTGGGACTCTGCTGCACATGCTTGCTTGTGCATTTGTGTATAGTGTTGCGGGATCTTATGATTGAGTACCATGGTGGTGGTGGTGGGGTGGGCAGAATGTCAGCTAACTAAAGGAACCAACCAGTGACTGAGTCCTTCTCATCTCACAG
Seq C2 exon
GCCTCCAGGGACTTACGGGTGCACCAGGGAAGCAAGGAGCAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026390-Marco:NM_010766:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0139113=Collagen=FE(25.0=100),PF0139113=Collagen=PU(16.0=75.0)

							
A:
NA

							
C2:
PF0139113=Collagen=PD(6.7=25.0),PF0139113=Collagen=FE(20.0=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000027639





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr2:118974566-118977470 
LOW PSI
HsaINT0099945
(MARCO)
Human
(hg19)
chr2:119732142-119735046 
LOW PSI
HsaINT0099945
(MARCO)
Rat
(rn6)
chr16:85129409-85131967 
LOW PSI
RnoINT0089753
(Marco)
Cow
(bosTau6)
chr2:71117300-71117710 
BtaINT0089967
(MARCO)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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"