Special

MmuINT0069480 @ mm9

Intron Retention

Gene
ENSMUSG00000032649 | Glt25d2
Description
glycosyltransferase 25 domain containing 2 [Source:MGI Symbol;Acc:MGI:2138232]
Coordinates
chr1:154351208-154354129:+
Coord C1 exon
chr1:154351208-154351335
Coord A exon
chr1:154351336-154353922
Coord C2 exon
chr1:154353923-154354129
Length
2587 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
TTCTTTCCATCTCCTTACAGTTA
3' ss Score
11.07
Exon sequences
Seq C1 exon
GTTATTGACCGAGAGCTGGAGAAGACTCTGGTCATCGAGGATGATGTGCGCTTTGAGCATCAGTTTAAGAGGAAGCTGATGAAGCTGATGGAGGACATTGACAAGGCTCAGCTGGACTGGGAACTAAT
Seq A exon
GTGAGTCACAAAGATGGATAGCTCTGAAGGGCAGTCTTCTCCAAGGTACAGAGCCCAGCTGGTAGGAGACTCAATCACACTTCCTTCCATTTACCTGATTTTTACACCACAGATATCCCCAGAAATAAGAAGGGAAAGGTTGGGTGGCTGTTTCTCCCTCCGTCTACAAGGTGAGAAACTATGGGAAATTTTGTTTTGTTTTGTTTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTAGTTTGGTTGGTTGATTTTGGCTTTTTGTTTATGAGACTGGAGTCACCCACCTGATCAGCGGCCTCTTGACAGAGCTGAGGAAACATCCTGAGGACCACTGGGGACAATGGTGGAAATTTCACCTGCAAAGTAAAGTGGCATGTGGGCCGGGTGGGAATGGGAGTAGCACACATTCGTTTAAGAGCTAATATGTACTTGAACGTCAGCTCCCAGGACGAGGGTTGCCTCTGCAGTCCCTGATGGGGTAGGATGTGGAAGGATCTAAACCAAGCTCCTCTGTGAGGATGGGGTTGTCTAACCAGGAAAAGCACTGACTGCTAGGCTTGTGGTAGGAAGCCAGGCTCACTCAGGGAGTGCGGGCTCAGAGCTGGTACTAGTTAGTGCTCCGTCTCTTGCCTCTGAGTTAGCATCTTTTTGTTTTCCTTCCTCCCTTCTTCCCTTTCTTTCCCCCTTCTCTCCTTTTCTTCCTCTTTTCTTTGTGAAATAAGCAACACTCTCTGTTCCCTCCAATGAGGCAGAAACATCCCAAGTTTTCCAACTGTGTATCTAAGGTAATCTTGTCAAATTAGAGCCTGCTTATTTGAAACAGCCCAGCTTTCCCTACCCTTCCATCCTCAGCGAGAAAGAGAAATTTGGACCCTGATGGAACTCCTCTTTTGAACTTAAGAAAAGAATTTAAAAAGAAACCCAGCAATGATGCAACTAACTAGGAAATAAACCTCAAAAATCATACTATGTAATAAAAAGGAGGCCTTCCCCTGTCAGTTGAGTCACATGATCCATATTCTGAACAGTCTGTTAAGATCACAGTTCTAGCCTCCAAAAGTTACTGTTCTTCAGCCCTTCTGCATCTATGGAGATATATATATCCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTTAGCTATAGAATGTTACAGGTACATATATGATTTTAGGGCTGACCACCTGGTATTGAATATCCAATTTGAGGGTGTTATGGTTTGTATATGCTTGGCCCAGAAAGTGGTACTATTAGAAGGTGTGGCCTTGTTGGAGTAGGTGTGTCAATGTGGGTGTGGGCTTTAATACCCTAGTCCTAGCTGCTTGGGAGTGAGTATTCTGCTAGCAGCCTTAGATGAAGATGTAGAACTCTCATCTCCTCCTGCACCATGCCTGTCTGGATGCTGCCATGCTCCCACCTTGACAATTATGAACCTGTAAGCCAGCCCCAATTAAATGATGTCATTTATAAGAGTTGTCTTGGTCATGGTGTCTGTTCACATCAGTAAAACCGTAACTAAGACAAGAGATTCTTCCCAGGGCTGGGGAGCCTCCTGCTCTCAGTATTCCTAAGTTTCCTGTCATTCTTTATCTAGGGCTGAAAACCCACAAGATTTTCCCCCATCTGTTGTGTATTGGTATTGTACTTATTCAGGTCTTGTTTAAGCAGCCATGTTGTTGAGATTTCGTGGGTGTAGCTTCCCTTACACTCCTAGGAGATGCAACCTCATAGCAGATATCCCATACCTCAGATTCTTACAATCTCTCCACCCTTTCTTCCTTGATGTCTCCTCAACTTTACATGTAGGAGTTGTGTTAGAGATGGGTCAGTCGGGACTGGGCACAAGTTTTATCTCTACTGCACTTGAGAAAGTCTGACTCTGAGAACATCTGCTTGAGGTTCCTAGAAGAGCTGAAAGCTGAATATGTTCTTATTCCTTGGATCTCCATGTCTTCTTCAGTGCATGAGCAGAGTGTATAGGGGAAAGACTTTCAGAGTCGTCATTCAGACTCCCCAGAGGGAACCCGTTGGGGCTCCTCTTGGGTCTCTAGGTTCTCTACCGCAGACTCGTTCTCACTCACAGCCTTTTCTATGCTGTTTAGCGCCTGCACATGGAAAGTGGTACAGAAAGCATCTGAGGCAGAAGCTCTGGGGACATGAAGGCATGAAGACAACAAACTCAAGATTCTCACATCTGGCTTTTTTTGTTCCTTTCCAACCTCTGTAAACACAGCTGGAACTATCTTCCCAGGGAAATCATCCAAGCAACTTTTTCATCTCTTTGCATCTTCCTTTTCTGGCTTAAAGACAGACCACCAGGCCTGAATAGTTGGGGTGCCGATAAATGGAGTTGGAAAACTGACTTTATAAGGACCAATAGCAATTATGGATACTGCTAGAATGATCTCTGTGGTGGTATGCATTAGGAAAAGACACAAGAGTCCAGGCTTTAAAACATCTTTTAAAACTAAGTATGTGCTCTATTCTTATAATATTCAATATTCTAATATTCAACTTGGAACTCTTCTCTTCTTTCCATCTCCTTACAG
Seq C2 exon
TTACATCGGTCGAAAAAGAATGCAAGTCAAAGAGCCAGAGAAGGCAGTGCCCAATGTTGTAAATCTCGTCGAAGCTGATTATTCCTACTGGACCCTGGGCTACGCCATTTCCCTGGAAGGAGCACAGAAGCTTGTCGGAGCCGATCCCTTTGGGAAGATGTTGCCAGTGGATGAGTTTCTGCCAATCATGTACAACAAGCATCCTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032649-Glt25d2:NM_177756:10
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:
PF0175512=Glyco_transf_25=FE(22.6=100)

							
A:
NA

							
C2:
PF0175512=Glyco_transf_25=PD(32.3=85.7)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000037532





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:183940788-183944195 
LOW PSI
HsaINT0069711
(COLGALT2)
Human
(hg19)
chr1:183909922-183913329 
LOW PSI
HsaINT0069711
(GLT25D2)
Rat
(rn6)
chr13:69896020-69899161 
LOW PSI
RnoINT0040554
(Colgalt2)
Cow
(bosTau6)
chr16:66454784-66459911 
LOW PSI
BtaINT0067229
(GLT25D2)
Chicken
(galGal4)
chr8:7710899-7711398 
ALTERNATIVE
GgaINT0039815
([1])
Chicken
(galGal3)
chr8:8050749-8051248 
ALTERNATIVE
GgaINT0039815
(GLT25D2)
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"