Special

MmuINT0068108 @ mm9

Intron Retention

Gene
ENSMUSG00000000394 | Gcg
Description
glucagon [Source:MGI Symbol;Acc:MGI:95674]
Coordinates
chr2:62318522-62321710:-
Coord C1 exon
chr2:62321623-62321710
Coord A exon
chr2:62318626-62321622
Coord C2 exon
chr2:62318522-62318625
Length
2997 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CCCATTCTGTGTTCCATCAGGCA
3' ss Score
9.26
Exon sequences
Seq C1 exon
AGAAGGGCAGAGCTTGGGCCCAGGACACACTCAAAGTTCCCAAGGGGACTCCCTCTGTCTACACCTGTTCGCAGCTCAGGCTCACAAG
Seq A exon
GTAAGAGGCACACTGTGCGGCGGGGACTGTCTGGAGGACATTGGGCAGTGAACTATGTTTAAGTACTATGAATTAAAATGTTGTTTTTACGTCTTTTACCTTATTGATAGGACGATGAAGGGCACAGTTTAGATCAAAGCGTTATTGATTAGATTTATACCTACTTTATCGTGATGAATTTGCAAACTACTTAGAGAAATAATATAATGCATTTATAAAATAGAAAGAAAAACAAAGATTCAGACCAGTGCATTTGTTACAATGTGAACAGTATGTTCAACTAAGTAAATACTCTGAAAAATAAATATTTTTGCTTTGACTTGAAAGATGCGCGTACTACTTTGAACAGAAGGGGCTTTTTAATTTCACAAGAAAATGTGTCCATTACCAAGACTATAATAGCAGTTTTTCTTTATGAATTAAAAGCTTTTTTTAAAAGCTTTTGTTTTCTAAAAGAAAATATTCAGTCTCATCTCTCAACTATCCAGATTTCTAATAAATGTTTCGAGGTATCAAGGCCCTTTGTAAATTAAAGCTGACATCTATAAAGCAGAAAACAAGCGTCATCAATAACTGGGAATGTCTTCATATGGGTTATAAAATAACAGTTATTTACCATATAATAGTTGTAAATACAGTCTAAAGTAGCTCCATCTGGAATGAGATTCTCTGCATCTCTTTAGAAAGACCAATCAGATATTCTGAAGTGCCTTCTTAAGTTCATAGGGAAAAACCCCAATTCACAAATGCCAGCAACGGAGTCAACCATCAGGCATAGTGTGTTTCAAGACATCCCAGGGCCGTTACTTCTCAATCTGGGGGTCAAACAACTCCTTCACGGGTATTGTATATTAGATATTTACATTATGATTCATAACAGTAGTGAAATTACAGTTATGAAGTGGCATTGAAAATAACTTCATGCTTAGAGTCACCACAACATGTGGGACTGTATTAAAGGGTCACAGCATTAGGAAGGTTGAGAACCACTTATCTAAGGACTCGTTATTAAGGGAGATAAGGAAGCAGAAAGTGTTTATGTACCCTACAACACCAATGTATCTTAGGAAAATAAAATAATCTCTTCTTTCCTAAATCTAAGATTCTTTTTCTAAGACTTTCCAAACAGGGAGTAATACTGTACCTATATCCTAATTTTAATTTTGATAGGAAAGTTGTGGCATTTTTCTTTTTACTTTTTTTCAGAAATACCATTCTCTTTCTTTACACTAGCCAAAAGAGGAGAGAAGTAAGTGTAAATTTCTTACTGGATACAATGTTGATGCTAACATAATATATTTAATTCTAAATAATAGTATTAAAGCAATGGGTTAATTATTTTATTTCTCAGAAGTTTCTTAACTTTCAAAAAGTGGCTAAAGGGAAGTGAGTTATACCAAGAGGTTGCATTGGAAGACATATGTTCTCTCTGTATTGTCCTTTCAAAGTCTACCCTTTAAAAACATGACCAGGGCCATCTCAGAACCTTCAGGGACTTTGGGTTGAAGGGTTTATTTAGGACTGAGTTGGCATTGTTCAGTCTTTTGCAAGAGGCTTTCCAATAGCATTATGGTCCTAAAAGGAAACTTTAACTCTTCAATAGTATAATAACACATTACCATTGAAAGGTACAATCAAAGACATGTCAAAGTAGCCATGTGTTGTTCATCATCAAGATAGATGAAAGCATAATTTCTATTATGCTGTTTTGTCTGATTGGCCAGTTCATCAATAAGTACTTATTACTTCAGGAATCTACCACTCCAGGTATGACAGTCTCTATTTTACTGCTAAAGACAGATAGTAAATATGGCTGAGATGTTAAAAAAAAAGATTGATGTTTTAAAAATGATAATATTTGTAAAATCCTTATTCCAAACCAAATGTCATTTGCTAAAAATACTCATTTCATTTATTTATGAAGAAACATAATGAAACTTGGGCTGAAATTCCCATTTCTCAAAAATAAAACACTAGAGTTGGAAGGTTGCAGAGAGAAGCCTGAGACACACTCTGGACTCAAGATTCCAACTCAGAAGACAGAAGAGCTCACTCTTTAGAGGTGTCCTGGTCCACACTCATGTAGACCCACATCCTCATCACCACAACCCTGGTATCTTCTGCTTTCACAGGTTATCAGTTTTTGCCAAACAGACAAGAAACCAGGTGTATGCTGCACACAGACCCACAGTGTCATTACTAGGAAATGTCATTTTCTAGACTGAGTATAATTACCAGACAACCAAGGGACTTTGGGACTTCAAAAGCAAGCACTAATTTTCCCTAGGATACTAATCTTTAATTTCTTAGCTGTGATTGTTCAAGTTGCCAGGAGCATTAGCTCTTATTGCAAATTGCTTGTCTTTAAAATGATTTTTTTCCTTTAATTTAGAACAGGTCAAAGCACCCTAAAATACCTCAAATCTGTTGGCCGCTTTATAATTACAAAGTCTAGACCAAGTTACACTATTTAAAATATAAATGAATAATACATCTGAACCGACAGCTGGTATGCCAAGTTGTAGCCTGAGGCGGCTTTAAGATGGTTGAAATGCAGTATAATGTAAATGCTTGGAAGTGAAGGACGATTAATTGAAAGCCAGACTGATAGTGAAGGGGTGGTGTTATGGATAAGGTGCCACTCAGGCTAACCATATGCAGCATATCATCTACAGAGGGTATTTTAAATGTTTATTGTGGACACTTTTATTTCAAGTCTGGAAATGAGCCTTCTAAACATTAACAGAAGTGTCCTACATTAATGAAAAGCCTAATAGTAGAACAGATCCTTTGTGTTATTTTTTCCTTATCAAAATTCATGGGGGTAGGGGGGTGTATATTCTATTTGAATTTAACATGGCATTGGAGCCATAAGCAGGGTAAAACAGACAGAATAACTTTTGTCTGCACGTAATATTAACTTAGTCAAAATTGAGCTCATTTGGACTGCCTGCTCCCCCATCACCCCCTACCCACCCCCATTCTGTGTTCCATCAG
Seq C2 exon
GCAGAAAAAAAAATGAAGACCATTTACTTTGTGGCTGGATTGCTTATAATGCTGGTGCAAGGCAGCTGGCAGCACGCCCTTCAAGACACAGAGGAGAACCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000394-Gcg:NM_008100:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
5' UTR





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=NA A=NA C2=0.290
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000099794, ENSMUSP00000115892
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr2:162149188-162152157 
LOW PSI
HsaINT1014253
(GCG)
Human
(hg19)
chr2:163005698-163008667 
HsaINT0068253
(GCG)
Rat
(rn6)
chr3:48448651-48451599 
LOW PSI
RnoINT0064413
(Gcg)
Cow
(bosTau6)
chr2:34398091-34401297 
BtaINT0065965
(GCG)
Chicken
(galGal4)
chr7:20619635-20624650 
ALTERNATIVE
GgaINT0048676
(GCG)
Chicken
(galGal3)
chr7:22693004-22700445 
ALTERNATIVE
GgaINT0048676
(GLUC_CHICK)
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"