Special

MmuINT0072410 @ mm9

Intron Retention

Gene
ENSMUSG00000030954 | Gp2
Description
glycoprotein 2 (zymogen granule membrane) [Source:MGI Symbol;Acc:MGI:1914383]
Coordinates
chr7:126586058-126589038:-
Coord C1 exon
chr7:126588994-126589038
Coord A exon
chr7:126586354-126588993
Coord C2 exon
chr7:126586058-126586353
Length
2640 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAC
5' ss Score
7.48
3' ss Seq
TTGTGTCTCTTGTGTTTCAGGGT
3' ss Score
11.91
Exon sequences
Seq C1 exon
GTGCTCAGAGTTCTGCTACCTCGAAGGGGACTCCCCACACTACAG
Seq A exon
GTATACGGTTTCCTTATGCTTTTCTTACAGCCCTGCCAAGTTTCTCTCCTGTCCTCCCACCCTCTGGACATCTATGTATCCCCTTCAATGTGTCAGGCCCTGCTGGGGACCAGGGCTTGGTGAAATGAGGCTAACCCAAGAGTGGTTCTATAATCTAGAAGTAGAGCCAGCTGCTTAACAGCAAGTGTTTAACAAGTGAGACTGTGTGCCAGGCACTGCTCTAGGAACTGATAATATGATGCTGATCAAGACAGCGCAGGTGCCTTCCCTCAGAGAGTTTGTGTTCCAGGATGAGAAATAAATAATAAAACCAAAACCCAAACAGTTTAATTAGAAATAAAAGATGGATGGTGGAATAGAAGCTACAGGCATAAGTAATAAAGTCTTAAATTTATTTACTTAAGTTTATTTCTCTAGCACGTAAGTGAAATCTTATGTGTAAGAGAACCCATGATTCAACAATCAATCAAAGATTCAAGCTCCTTCCAGCTTGCTCTTGAGGTGAGATCATTATTTTAATGGTCCAATTTAGCATCCAGAGATCAGGACAGGGGAATGTGAAGGAAGACAATGAGTGCTATGGAACATACTGGCAACTGGCACCAAACACCTACATTTGTATCTCATTGTTTACTATCTAACTATGTGGCCACACCTGGCTGCAAAGGAACCTTGGAAATAGAATCTCTGTTTTGGATGGCCATATGCCAAAACAAGGTTTGATGGCTTGATGATCAAAGCAGGAAGAGATCATGGATCAGAAGAACTGTTAGAGAAAATATTTGATCTAGAGAGAAAATGTCTCTGGATCAGGAAGCAATGGGTGAATGGAGCTGAACAGGCAGAGGCAACCACAGCTGACTAAATAAACCAGACAGGAGCATAAGATGCTAAGTAACAAGCAGGTAGAGAGAGCAGGCGTGCACAGTGGCCTAATTAGCCATACCAGAGGTGGTCAAGAGAGTTCAGATGACACAGATATCTGAACGGGGCTTTGATGAATGTCTTGTAATTTAAGGCCAAGGACATTGAAGAATGTGTTTTGGACAAGATGGAAAACATTTTTTTTCTATCCTCTGAAAGACAGATGTTAGTGAACATAGATGGGAAAATGTTCTATTCATGTTTAAGACCTCAACTTTGTGGTCATCTAAATATTTCCCAGACAAGAACAGTTCAGTGGTAGCTTCGGATGGTATCCAGAAAGGTAAGACTCATTGTGTGACATGCACAGAGCACAGAGCAAAAGTGCCTTGGAGTCAGCAACCCCAGGTTTCCTCCACTTCCATTGCTCCTTCAGCTTAGCACAGTGATCAGAACAGTGACTTCCCAGCCTGCTGAGCTGCCTCTCTTCTCCAGTGGGCTACAAATGTTGGCACCTTCTAGAGGTGGAGGGAATGGAGCTAACAAGAGGGAGCAGGCTGCCACAAGAGGGCTCTGTGGTTTTCATAGTTTTCCATCACTCGGCTTCACTTCTGCTGTTTCCGCATTAACTGATCTCATTGTATGTCTCATTGTAAAAACTCTCTGTCATACATTTGTGTTTCTGAAGATCATGCTTTCCCCTCGCCACTCTCTAGGACATCACCAAATTACTTTGAATTGTTGGGGGTGGGGAGATGCCGTATTTGGTAGTGGTGTCAAAGGGAGTTGACATACTTATGCAAAACTACTGCCATTCAATATTTCCCTCTTCTTAATACTGAACATATAATAGTACACAGAACACACACACACACACACACACACACACACACTCACTCACTCACACACACACCATAGATATCAAAGTCTAGTTTTCAAAACCAACACTTACACAGGGCTTACCATAGTCTAGGCACATATTTTATATTTTATTTTATTGTGTTATTGGGGGTTGAACCTAAGACAACAGGTTTGCCATGCAAGTAGGTTGCTACTAAGTTAGAGTTCCCAGTCCACAAATGCTATTCTAAATGTTTGATATGAATTCATTCATTTAAATCTTATGAAACCTGATATATCAATAGGTAAACATTATGAGTTATATTTTCTTTATAAGGAAATTTGGGCAAAAAGAAGTGCACTGTTTTGTCCACATCTACCCAGGTAATTGCAGACCTGAGATTCCAATCTAAATAGTCAAACCTCAGAGGTGGTGCATTCTAATCCCATCTTTCTGCTTCTTCATTATTAGTCACTATAAGTGATGCACCAACTATACCCAATAATCCTAACTCCTCTATGCCTTTGTGCTAGGGGATACAGTTCTGATCTGGTCCTTAGAAACTCCTCCTCCTCCTACCCTTTGGCAATTCCTGGTAAAGTCGCTATGTTCTGTGAGTCAGATCCCGGATATTTGGCAAATGAGAGAACATGCTGGAGGTTTTTATTACTATCCAACAAGTGAAGTTTATAATTTCCATCCTTATTTTGTTGACAAGATCTAGACTCATGCTATCACCTCTCTGCAAAGAAGGCTGAGAAGACTACCTTCTATATGCCCAGAAGAAGTAGGAAAAAGCAGTTGTTGTCCCAAACAAATCTAGAATTATATGCTGCCTTCCGGTACTTCTGCAGCAAGTGACAAGGAGGCCAGCTGGCATTGGCTGTTAAGTGTCATCAAAGCTCGACATTTGACTTGTGTCTCTTGTGTTTCAG
Seq C2 exon
GGTTCTTGTTGGCCTGGCCCATGTTCTTCCTGCCTGTCTTCCTGGCTCTACTGTTCTGAGAGGCCAGCTGAGCACCTGGCCTTAAAGTTCTTCCCTCTGGCAATGGCTCACACCCATCCTTCAGTAGAACTGGATTCCTCTGTGAATCATTTCGATTGCCCTGGAAATGCAATGTATATTGATAACTCCTGGGTAGAGTTGTCCTGTTAGTGGATGGGAAAGGGCAAATCCCATGATCCTTTCAAAATGCCTCTTGTTCTGACAGCTAATGACTTGAATACATCAACCCTTGCATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030954-Gp2:NM_025989:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.194 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0010018=Zona_pellucida=PD(0.1=0.0)

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000078821





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000033255
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr16:20311282-20314656 
LOW PSI
HsaINT0070854
(GP2)
Human
(hg19)
chr16:20322604-20325978 
LOW PSI
HsaINT0070854
(GP2)
Rat
(rn6)
chr1:189167033-189169635 
LOW PSI
RnoINT0066489
(Gp2)
Cow
(bosTau6)
chr25:18103439-18106771 
LOW PSI
BtaINT0068041
(GP2)
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"