Special

MmuINT0071278 @ mm9

Intron Retention

Gene
ENSMUSG00000049897 | Gm711
Description
predicted gene 711 [Source:MGI Symbol;Acc:MGI:2685557]
Coordinates
chr2:26805545-26806202:+
Coord C1 exon
chr2:26805545-26805685
Coord A exon
chr2:26805686-26806073
Coord C2 exon
chr2:26806074-26806202
Length
388 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
GTGTTTATGGCTGCCTACAGGAC
3' ss Score
8.36
Exon sequences
Seq C1 exon
CACTGGCAAAGGACCCAGAAGCTGAGATCCCAAGGAGCAGTTTGATCATCTCCTTCCTGATGGATACCTTGCGGAGCCATCCTAACTCTGAAAGGCTTGTTAATGTGGTCTACAACGTGCTTGCCATTATTTCCAGCCAAG
Seq A exon
GTGTGTTGGCCTTTTGCTCTGTTTCTGCTCTAAAAAGCCAGGGACAGAATAGAGGCCTTGGGAGATGGGCAGGAGAGGGGCCCATGCCCAAGATGGATAGCCACGCTGTTCTCTGTTCTGAGTGGCAGCCATGGGCACTGCTTGGAAACTCGGGACAGTGGCCAAGAATTGAATGGCTGGCTAGCTGGTCAAGTCAAGGCTAGGCACTGGGCCACTTAGACTTCTTCCCCACCCACACTGAGCCCACTTGGGCGAGAGGGGTATTAGGCTTAGGCATTAAAGTAGACCAGCCAGGCAGACTAGGTATTGCATCAGCCCACTGAGAAAAGGTAGTGCTGGGGAAGGCTTCTTGGAAACTTCCCCTCCAAGTGTTTATGGCTGCCTACAG
Seq C2 exon
GACAGATCTCAGAAGAGCTGGAAGAGGAGGGGTTGTTTCAGCTTGCCCAAGAGAACCTGGAGCACTTCCAAGAGGACAGGGACATCTGCCTCTCTATCCTGAGCCTGCTCTGGTCCCTCCTGGTAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049897-Gm711:NM_198628:13
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:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000062967f4714A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000062967
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:133401879-133402877 
ALTERNATIVE
HsaINT0025655
(STKLD1)
Human
(hg19)
chr9:136267008-136268006 
ALTERNATIVE
HsaINT0025655
(C9orf96)
Rat
(rn6)
chr3:5497027-5497400 
LOW PSI
RnoINT0145180
(Stkld1)
Cow
(bosTau6)
chr11:104355557-104356312 
BtaINT0142617
(STKLD1)
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: 
GCAAAGGACCCAGAAGCTGAG

				
R: 
CATCTACCAGGAGGGACCAGA

				
Band lengths: 
265-653

			

		

	





	
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






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