Special

MmuINT0071693 @ mm9

Intron Retention

Gene
ENSMUSG00000036246 | Gmip
Description
Gem-interacting protein [Source:MGI Symbol;Acc:MGI:1926066]
Coordinates
chr8:72341622-72344399:+
Coord C1 exon
chr8:72341622-72342009
Coord A exon
chr8:72342010-72344332
Coord C2 exon
chr8:72344333-72344399
Length
2323 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
TTCTGGGTTTCTTCCTGCAGCTT
3' ss Score
9.81
Exon sequences
Seq C1 exon
GGTGGCTGCTCGGTTTGAAGAAAACAAGATGTCTGCCAACAATCTGGGAATTGTATTTGGGCCTACACTGCTGCGGCCACCAGATGGACCCAGGGCCACCGGTGCCAGCCCTGTGGCCTGTCTGCTGGACTCCGGTCACCAGGCTCAGCTGGTTGAGTTCCTCATTGTGCACTATGAGCAGATCTTTGGAATGGATGAGCTCCCTCTGGCCTCGGAGCCTCTGACCCAAGACCCTGGCTTGGCTCCTGCATGCCTTGAATCCAGTCCCCAGCACCCAGCCTCACTTCTTGCCCAAGACACACAGCCCCTGACCATAGCCTTGGATTCCAGCCCAGACCCCAAACACCACAGTGCCTTGGAGAAGTGCCCCGAGGTCACACCTCCTGAG
Seq A exon
GTAGGAATCAGCTTGCCCTGCAGATGTGGGGAGGGCCCTGTCTGTGTTTAATTCTCCTTCTTTTGCACAACTGGATATTGACTCCAGGGCTTGGTGTGCATTAGGCATGTGCTCAGCTCTATGTTACACCCCCAGCGCTCTCTTTAAGTTTCTTTTGGATTTTTAAGAAACATTCATTTAGAGAGTATGCAGGCACACGCATGTCCCGTTGTGAGTGTGAAGGCCAGATGGCAACCTGTCCTTTTACCCCCTGGATCCTAGGGACCGAATTCAGGTCCTTAGACTTAGTACCTCTAGCCCCTGAGCCAGACTAGATTTCTTTTATTGCATCTTAATTTATTTATTTATTGTGCATGGGAGGGGAGTATCATGTGATGGTCAGAGACAACTTGTGAGAGTAGTTTTCCTTCTGCCCTGTAGGCCCTGGGAATGATTTGCCAAGCTTGGTGGGAGATGCCTTTACCTATCCAGCCTTTTTTTTTTTGTAATGTATATTGGTGTTTTGTCTCATGTATCTCTGAGGGTATCAGATCCCCTGGAACTGGAGTTATAGTTTTTGAGCTGCCATGTGGGAGCTGGGTATCGAACCCGGGTCTTCTGAAAGAGCAGCCAGTGTTCTTAGCCATTGACCATTTCTACAGCCCCAACTTACTGCCTTACTTGACTGTTTATTCTGTTTTGTTTTTGTTTTTTAGTTTTGGTTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAAAAATCTGCCTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGCCTGCGCCACCACCGCCCAGCTGTTCTGTTGTTTTATCTGACTTTGAGATATGGTCTTTCTCTGTGATCTTCCTGCCTTAGTGCTTTGAATGCTAGGATTGCAGTTAGGTGTGCACCTCCTTTCTGATCGTCTCCCTTTCTCTTCAACATTTCTTTGTTAGGCTACGCATGGTGATGACTTTAATCCCAGCACTTGGGAGACAGAGGCAGGTAGATCTCTGGGAGTGTAAAGCCTGCCTGGTCTACAGAGTGAGTTCCAGGGTGCAGAGAAACCCTGTCTTGAAAAACCAACGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAGAGAGAGCGAGAGATGTATTTTCTTAGTGTGTGGGAATACATGGGTGCTATGACATTATAGAGGTCAGAGGACAGTCTGCTGAGTCTCCTGAGGGCTTCCCATCTTGCCATAGAAGAGCTGACATTATGGGTATTTACCCCCCAAACTCTAGGGCTTTTTAACTTATTTATTTAGTGGGAGGAGGCACACAGGCATAGGTGTGGAGGTCAGAAGACAACTTGCAGGAATCAGTTCTCTCAGTCCCCCGTACAGTCTGGAGATCAAATTGATATTGCCAAGTTCAGTGGCAGTTACTTTTACCCACTTAGCCATTTAAATGAGTTTATAATAAACAGCTGGGCCAGCTCAGCACCCATTGTTAGAAGTATCAAGTACCAGGCCTTGCAGGTACATGAGTGAGCTAGATAGATGTTCAAAGACCCCTCCCTCTTTTGGTGTCTGAATCCAAGAGAAAGAAGACCAAAAATCATCATGAAATTGGGCACATGCAACATTCTGAGGTCCTGTGAAGAAAGGAAGATGGAGTAAGGGCTGCCCATGGTGAGGACCAGAGGGGTTTGCAGCAGAAAATATAATATGGGCAAGTCTTTTGGGACAGGTGAATTTGAGCAAAGAGTGGCATGACATGGGGGCAAAATGAGGCATGGTCAAATCTGGGAAAAGCTGTACCAGGCAGTAGAACAGCCCAGTGCAAAGCCCCTGGGGTGGGAGCCATCTCCAGTCCTATGTTATACTGCCTGGGTAAGAGAAGCAGGAAGGAATCAGAGCCAGTCTGCAAATGAGTCTCTGTGGCAACGTGCTCATCAGTCTATGAGAGGCTCTGGGTTTGCTTCTCAGCACCAGGAAAGAAGGGATGGCTCTGCTAGTCCCCGTGAGCACAAGGGGAGCAGCAAATGACCACTGGCTATATGCAGACAGTGCATTGAGATAGGATCACTCATTGAACTTGAAGCTGAACTGGCATGCCAAAGAGCTCCCAGGACCCCTGTCCCCACCCCACAATACAGAAGTTACAAGCACCCAGCCATGCTTGGCATTTAAACTTGGGTTCTCATGCTTCCACAGTGAATCCTCTTAATTTACCGATCTTTTCTCCAGAAATCCCTAAACAGGGACTTTGCTATTGGGAGTCACGTTCTGGGTTTCTTCCTGCAG
Seq C2 exon
CTTGCAACTCTGCAGAGGGACCAGAGGGAGGAGGAGGTGGAAGACACCAGAGATGGGGCAGGGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036246-Gmip:NM_198101:19
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.461 A=NA C2=1.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0062022=RhoGAP=PD(20.1=25.4)

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000116542





     
                   









    
Main Skipping Isoform:
ENSMUSP00000045676





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr19:19630538-19633802 
ALTERNATIVE
HsaINT0069912
(GMIP)
Human
(hg19)
chr19:19741347-19744611 
ALTERNATIVE
HsaINT0069912
(GMIP)
Rat
(rn6)
chr16:21351104-21353351 
ALTERNATIVE
RnoINT0065858
(Gmip)
Cow
(bosTau6)
chr7:3620672-3622404 
LOW PSI
BtaINT0067425
(GMIP)
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"