Special

MmuINT0002581 @ mm9

Intron Retention

Gene
ENSMUSG00000064308 | 2410137M14Rik
Description
RIKEN cDNA 2410137M14 gene [Source:MGI Symbol;Acc:MGI:1924047]
Coordinates
chr17:37115596-37118182:-
Coord C1 exon
chr17:37118085-37118182
Coord A exon
chr17:37115879-37118084
Coord C2 exon
chr17:37115596-37115878
Length
2206 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
CCTCTGACTCTTCTCCTCAGACT
3' ss Score
8.86
Exon sequences
Seq C1 exon
GCATTTGGAGGAGCTGATGCGCCTCGCCAGGAGGATCTTAATACTCGGTCAAATCGAACTGTGGACCCTGTTCGGCTATCATAGCCAGAGAGAGAATG
Seq A exon
GTGAGTGATCCTATATGGAAGGCTAGTCTATAGTCTCCGCATATTCTTATGAAATATGTACCTTGGGCTGGTGAAATCTGCAAGTTCCTGCAATCCTGGAGAAGCCTGCAGAAATTTACTGTGGTTTCATTTCAGTTTGAAGTAGGCTTTGACCAATCACGAGCAGGCTGTGTGCAATGAATGGGGCTAACCTGGGACATGGTGCTGACCACTTTGGCCTCAACAGAGTCTCACACTGTCCAGTGACTAATCGGCTGTGACATAGGGCCAGACCATCACCTCCTCCGTGGGTATAAGCACATCACTTATGAAGGCCAGGATTACATCTCTCTGACCGAGAGGACCTGCGCTCCTGGGTTGCAGTGGATACCGAGGAGTCTCAGATCACTAGGTGCAAGCAAGAGGCATCTGGTTTTGTTATATCATGCACATCTTTCTTGGAGGGAAGGTGCGTTGAAGTGGCTTCTCAAATACCTGGATAAAGGGGAGGAGATGCTGCAGCATGCAGGTTTCAGGGGTAGCTTCTATTGGCCCTTGAGCAGACTTTATGCCAGGACCAATTCCTAAGCCACCTATTGTGAAATACTGTCCCCCAGGCTCCACACAAGGCTGTTACTGTTTCAAAATCAGAAAAGCTGTGATTACCCTTACTGGGGATTCTAGCCATTCACACCCTCCTATGTTCCCCAATCACAAGGAATCCTACTAGCCACATCTGGACTTCAGAAATATTAGTGTATATGGGAACTAGAAGGTTAATTGATGGTATGGGTGTAGTGGCTGATGCCTTTAATCCCATCATTGAAGAGGCAGAGGCAGGCAGATGAGTGAGTTGGAGGCCAGCTTTGTCTATATAGTGAACTTCTGGATAGCCAGTATGGTAATGGTGTGTGTGTGTGTGTGTGTGTATTAATTGATTGAATTCATTGGTGGCACACTCCAGTGATCTAGCTTTTGTGAGTTGTCATTCATGCTGGAGTGGGCTTTTCAGTGTTGTAGGTGTTTATGAGTATTAAGTAACGCCTCACTCGTGTCTGTAAGTAACCTTCAATGCATTTATGGGATTGCCAAACTGTGTTGGATGGTAAGGATGGGCTTTGATGGGATCATTCATTTGGTCTGTTGTTGGAGTCCTGTCTGGGGTGAATAGATATCTATCATATCTCTCCGGAGAAAGTAATAAAATACTCTACACCCAAGTGGGGACCCAGCAGGACCAAAATGGGCTTGGGAGGATCAGGTTCACGGTTACTGGGATATAAGACATGAAATTGAAGCCAAACCATCCATGGGAGAAATTACTGATGTGTCTCTGCTTTCTCCATGTGGTGTGGAATGGCAGCGGAGGGTTGCAATGCACTTGGTGTGGATGATTGGACTCACATCTGAGACTGCTCCATCTGAAGGTGTATCGATACCTCGACATGGCATGCTATCTATCACAACAGCAACAGCAATTTCTGAAATAATACTTGTGGGGCAGGATCCTAAGCAGACAGTGACAGCAGTTGTGTGTCCTTTGCTGTGGGCAGTTGAGACTTGCAACTGGGGCTTAGCCATCTTCCCAGGGCTCTCAAGGCTGTGGGACATAGAAGCAGATGGGGTCTGGGTGATGTAGAAGTAGAGAAATTGAGTGTTGTCACTGCTCATTCCTCTCTGAAAGAAAGGTTGCACAGTCTGAGGCAATACAAAGGAATCATTGGGCCAGCAAGATGTCTCAATGTTTGGTGCTTGCCATAAAGCCTAACAACCTGAGTTTGGAACCCTGAGCACACATGGAGAAGGAGAGAACAAGTTGTCTTATGACCTCTAGATAAGTGCTGCACATGTATAGGGGTACACACACATATTGGTCTGGAGCAGAGGAAGCCTCCCTGATTTCCAGATCCCACAGGATCCACCTGAGCCACAGGGAACATTTTTACATTGAAAGCACAATAGTGGACTCCATCTTTTCGTGGATGAAGGGGTACCAGCTCTGAAAAGAGTGAGTGCCAGTCCTGTTTTGATCTCAGTCCCCGTTTCTGCCAATGTTCACAGATCGGGAACAGATCCAAGGAATAGATATTTCTTCATCCTAAGTCCATGCTGTGTAAGAGCTGCTGTTTCAATTTTCAACCCAACTATGGGGATGATCACATGACTAATGCTCATATAGTCCACAGGAGAGAACAGAAGGTTGTTACCCTCTGACTCTTCTCCTCAG
Seq C2 exon
ACTCCCCCCAAAACAAATGTGGCCCATCATTCAACGCTTGAAGGTGATGTCACCCTGAGATGCTGGGCCCTGGATTTCCACCCTGCTGTCATCATCCTGACCTGGCAGAGGGATGAGAAGGACCTGACTCAGGACATGGACCTTGTGGAGACCAGGCCTGCAGAGGACGAAGCCTTCCAGAAGTGGGCAGCTGTGGTGCTGCCTTCAGGAGAAGAGCATAAATACACATGCCATGTGCAACCTGAGGGGCTGTCTGAACCTCTCATCCTGAAATGGAGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064308-2410137M14Rik:NM_029747:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion (1st CDS intron)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=1.000 A=NA C2=0.168
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF0765410=C1-set=WD(100=87.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000044846





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000133725
  



Associated events






Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr6:29910804-29911898 
HsaINT0076430
(HLA-A)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr23:27863753-27864853 
Chicken
(galGal4)
chr16:60601-60754 
Chicken
(galGal3)
chr16:51589-51877 
Zebrafish
(danRer10)
chr19:7178669-7179978 
LOW PSI
DreINT0095822
(mhc1uba)
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"