Special

MmuINT0076167 @ mm9

Intron Retention

Gene
ENSMUSG00000026874 | Hc
Description
hemolytic complement [Source:MGI Symbol;Acc:MGI:96031]
Coordinates
chr2:34895191-34898790:-
Coord C1 exon
chr2:34898708-34898790
Coord A exon
chr2:34895282-34898707
Coord C2 exon
chr2:34895191-34895281
Length
3426 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATC
5' ss Score
4.14
3' ss Seq
GTCCTTATTTCTGTTTTCAGTCT
3' ss Score
8.54
Exon sequences
Seq C1 exon
GTATGGTGTTTGGACAATTAAAGCTAACTATAAGAAGGATTTTACAACAACTGGAACTGCATACTTTGAAATTAAAGAATATG
Seq A exon
GTAATCTCTAATATTAATATATTATTATAACTAAGAGGGATTTTGCAGTACCTTTGGTATGACTGGAAGTACCAGAAGAGGGTGGGGGGAGACAGATGTACGTAGTCATTGTTTGAGTAGCTAGTGCTTAGTTCTAACTTGCCCTGTCAGCCTTGAAGAAGCCAACTGATCTGCCTGGACTGTGTCCTTCATGACATTGTTGAAAGAAATGCAGTCCCTTGAGGAACTTGGCTTGTTAAAGTCCTTCCTAGAATTATAGTCTTGAGATAAATAATTAGATAAAGTGAGTAGAGCCCGATAGCTCACTTAGACCTTGGACATACTCCTATTTTGAGATCGGTCATATTACTGGGTCGTGAAGTAACTACGAGTAGCTGAATCTCCCCATTTCTCATTAGTTTACTCTAGGGGTGTTGGGAGCCGCCCTCACATTTGCCATTACAAGATGGCGCTGACAGCTGTGTTCTAAGTAGTAAACATAATCTGCACACGTGCAGGGGCAGTTTTCCCGCCATGTGTTCTGCCTTTCTCGTGATGACAACTGAGCCGATGGGCTGCAGCCAATCAGGGAGTAATGCGTCCTAGGTGGAGGATAATTCTCCTTAAAAGGGACGGGGTTTTTGCCATTCTTTCTCTTGCTTTCTTGTTCTTGTTCTTTCTCTTGCTTTCTTGTTCTTGTTCTTTTTCTTTCTCTCTCTTGCTCTCTTGCTCTCTGGCTCCTGAAGATGTAAGCAATAAAGCTTTGCCGCAGAAGATTCTGGTTTGTTGCGTTCTTCCTGGCCAGTCGCGAGAACGCGTGTAAGATAGGGGGTCTGTGCTGTAATCAGATTGGGCGTCTCTGCTTAAAGCCACTCTCTCTTTCCTCAGGAAGATTCATAAGAAGGGCAGATAGATGCACTGTTAACAATCAGCAGGGAGACAGTGACCAAATATGCCCTCGTGGGACTCAGCCTTGAAGATTAAGCCCGGTGCCTTGTCCTGCCTGACCTCACTGCTTCCTGCGTTTGCCGCTTTCTGTAGGCATGCAGATCCCTCCTGTCTCTTACTCTCTGTCTTTGCCCCCAATCCACTCACCTCACCAGGTTTACGCCAAACAGGACAGCAGCCGTCCTAGCATCGCTGTTTATCAGTCAAACCATCTCAGGATGACAGTCATCATAATGATGATGCAGAAAGCACCTACTACTCGCTCTTTATACCTCTACATCCTTAGCTTGAATTGCCCCTGCTCCTTCTTCAGCCTCATTTTATATCACACTTGCCCCCCCCCCCCGGCTTTGGAAATATCACACGTGGTGTTTTTCCATTTCCCTCCTGGCCCGGTCAATTTCGCTCACATCTCGTGTCTCAGTCTGATGTTCATTTACTTGGAGAATCTCTCTTTGGATTTGTTTCCTGGGTAGCATCTCAGCACTCAGTGTACTCTGAGATTATTTCCTTACCCTGCTGTAATTCCACTCGTCCTACGGCTACTGTTCCTATGGTGACACACCACAGTCAAAGCAATGTGGGGAGGAAAGGGTTTATTCGGTTTACACTTCCACATCAAAGTTCCACATCAGGACAGGAACTCAAAACAGGGAAGGAACCTGGAGGCAGGAACCTGATGCAAAGGCCATGGAGGGGTGCTGCTCATTGGCTTGCTTCTCACATCAATTCAGTCTGCTTTCTTATAGAACCCAAGGCCATCAGCCCAGGGGTGGCACCATCCACAGTGGGTGGGGCTCTGCCCCATCAATCACTAACTGAAAAAAAAAAAACTCTACAAGGCATTTTCTCAACTGAGTGTCCCTCCTCTCAGGTGACTATAGCTGGTATGGAGTTGACATAAAACTAGCCAGTACTTCCTCCTGCAGCAGATGGGGGCAAATAATAGATACTCACAGTCAGGAATTACTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGCTTGGAATACACAGCTCTATAGGAGATGTCTCCATCTAATCCCTCCCCTCAGAGCTCAGAGAACCCTACAGAAGAGGAAGCAGAAAGAATGTCAGACCAGAGGGGATGGAGGACACCAGAAAAATAAGGCCCACTAAGTCAACATGAGCAGGGCCTGCATAGGTCTGCACAGGTCCTCTGTGTGTATGGATAGACTGTAGCCTTCAGCTTAGTATGTTTCAAGACTCCTGAGTGTGTGAATGTGTGGGTCTCTAATTCTTGTGCTTTCTCTTGGGCTCTTTTCCTCTGTTGGGTTGCCTTGTCCAGCTTTGATGTGATGGTTTTGTTTTTTTCTTGTTATATCTTATATTATTATTATCCCTTAGAAGCCTGTTCTTTTCTAATGAGGAGGAAAAAAGGGAGTGGATCTGGATGGGAGGGGAGTGGGGAGGAACTGGGAGGAGTAGAGGGCGGGGAAACTATAATTGGGATATATTGTATGAAAAAAGAATCTATTTTTAATAAAAGACAAAAAACCTAACTAGCACAAGTACTATGGCCAGAAGTAGCTTGCGGGGGGGGGGGGTTGATTTTTTTGGGGGGGGGGCTAGACTTCTAGTTCACAGTCACTGAGAGAAGTCAGGACAGGAACCCACACAGAACCTGAAGCAAAGGCTATGGAAGAACACTTTGGCGCATTGTTTTTCAAGACAGCATTTTTTTCTGTGTAGTCCTGGTTGTCCCGGAACTCACCCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCTCCTGCCTCTGCCTCCTGAGTACTGGGTTTAAAGGTGTGTTCCACCACCACCTAGTGTGGAAGGACACTTCTTGCTGGCTTGCTTACAAGCTCATGTTTGCTAGATTTCTCCACAGCCCAGGACTACCTGCCCAGGGAATGGTGCCGCCCACAGTAAACTTCTGTATTAATCGTCGATTAGGGCAATTCTCCATAGACATGCACAGAGACTACGACAGCACTTAAATACTGGCTAGATTTGATCTACTAATGAGAGATGCTCAATAAACCCACATTTTCATTTCCTATTTTCAATTTAATAAACTCATTGAATAAATATTTAAGACTTATAAGAAGGATAGGACTTACAGAGTGAGAGACAGAGAGAGAAACAAAGACAGACAGAGACAGACAGACAGAGAAGTCCTTGTTCTGTTTTTAAGGAATTTCTATTCTACTGGAGAAAACAATTTATTGTCCATTATAATTAGTATAAACAAGATATAAAGAAGTGATTTGGGTACATCAAGCCTGGATTCACTCTTGATTTGGAGAGAGGGAAAGCTTATCAGAGATATGGTTGTTGTTGTTGTTGATAATGGTGATGATGGAGATGTGATGATGATGATAGTGGTGATGATGATGTTACCTCTTGTCCAATGAGAAAGTCTCGCAGCTTGCTGTGCTTCGAGGCCACTCTAGTTAAATGGTGACACTGTGTCCTTATTTCTGTTTTCAG
Seq C2 exon
TCTTGCCACGATTCTCTGTTTCAATAGAACTAGAAAGAACCTTCATTGGCTATAAAAACTTTAAGAACTTTGAAATCACTGTGAAAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026874-Hc:NM_010406:6
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=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0183514=A2M_N=PD(25.3=82.8)

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000028233





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:121030488-121032112 
ALTERNATIVE
HsaINT0024242
(C5)
Human
(hg19)
chr9:123792766-123794390 
ALTERNATIVE
HsaINT0024242
(C5)
Rat
(rn6)
chr3:14207600-14210053 
LOW PSI
RnoINT0027438
(C5)
Cow
(bosTau6)
chr8:112316016-112318349 
LOW PSI
BtaINT0029323
(C5)
Chicken
(galGal4)
chr17:8337944-8338404 
ALTERNATIVE
GgaINT0126359
(C5)
Chicken
(galGal3)
chr17:9041683-9042143 
LOW PSI
GgaINT0126359
(C5)
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"