Special

MmuINT0127517 @ mm9

Intron Retention

Gene
ENSMUSG00000032493 | Prss44
Description
protease, serine, 44 [Source:MGI Symbol;Acc:MGI:1920586]
Coordinates
chr9:110718921-110720503:+
Coord C1 exon
chr9:110718921-110719075
Coord A exon
chr9:110719076-110719592
Coord C2 exon
chr9:110719593-110720503
Length
517 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
ATTTCTTTCTCTTTCTCTAGGGA
3' ss Score
12.54
Exon sequences
Seq C1 exon
GTAGGTCGTCGAGAATACTGCAGGAGATTGAGCTGAATATTATCCGTCATGAGAAATGTAACCAGATTCTCAAGGACATCATGGGGAATATATTTACCCTGGTCCAGGAAGGGGGAGTCTGTGGCTATAATGAGAAAGGAGGAGATGCCTGCCAG
Seq A exon
GTCAGTTCGTGGGTCCCTTGCCACTCTGCCCCGCTGTCTTCCCGTCAGATGTCCCTAAGTCCCAGACATTGGGGCCTGGGTTGTGTCCCAGATCCTCCATTTACTGTTGTTCAGGCTAATGGAATGTCAGGTCAAGCCACCACAGCTCCTGAGCTAGCCTGACAGCATCCTCCAGGAGAAGAAAGCTGATGGCGTCCACAGTGGCTGGGGATGGGATGAATCGGGGAGGCAATAATACGAACTCCACGTTTTCAGGCCCTTCTGTGTGCTTGGGTAGTTTAGTTATTACTTCAGAAAAGGAACATAACATTGGGTTATATTCAGCTAACTTCTTTGAATAGGTAGAACTTTTCATTTGTTTAAAAAAAAAAAAAAAATCCCAAAATCTCATAGGAACCAGGACCAGGACCAGGGGATGCTGGGAGTCTGGTCTGTACCAATCTCTCCAGAGCCTTGGGGTGGAATCTATTGTACCATGAATCAATTTTGCTCCTGTCATTTCTTTCTCTTTCTCTAG
Seq C2 exon
GGAGATTCTGGGGGCCCCCTGGTCTGCGAATTTAATAAAACGTGGGTGCAGGTAGGGATCGTGAGCTGGGGTCTTGGCTGTGGCCGAATTGGATACCCTGGAGTTTATACAGAAGTGAGTTACTACAGAGACTGGATCATTAAAGAACTGAGTCGGGCTTCGTGTTGGAAGCTATCAGGCTTCCTCGTCTTAAGCGTGTGTCTGGTGCTTCACCTGGCCATCGTGGTGGCCCTATGATCCCCACAGCCCATGGTCCTCTTGTTTCTGAGCCTTCACTAGCTTCTCCCCTGACCGGATTTCCCCACCAATGCTTTCTTCAAATTCTACTTGGGATTGCTTGCCTTAGTGGAGCAGGAACACTGGAGGGAGTTTGGGGCTTGTAAGCATGTCCCGCCCTGGTGCTCTTTGTCATCTGCCTCAGATACCACTGTACTAAGGCTGTGCTTTACCTGGAGTGAAGGATTGTGGCCCACTTCCCGATAGAGGACTATCTGGCCTGCCAGGTGGAGGGAGATAACTCATCTTGTGAGTTATCTTGGAAAAAAGAACATCTCTAGAGGAGAGACTTCATCAGGACTGAGTGGGCACCGGGTCTAACTGATTTCATCAGGATTGAGTGGGCACTGGGTCTGTCTATTAGTCACTCTCACCAGAGACTCTAGAATACCAGTGAGATCTGTGGCCACACACAGACAGAGGAGGCATTTCCTGCAGAGGTGTGAGGCTGGTGGGAATCCATCTGTGAGTACAAAACTTTTGCTACACAACCTCCTGGGAGCAACCCTGTCTGGTGCCGCCTTCAACAGTTCCCACACAGCCACCTCCAGGGCCACCGCAAGTTGTGGTGGTGCAGTTTTGGAGAGGATAGATGTTAGATGTTGACTGAATAAACATGTCTCATGTGTTCTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032493-Prss44:NM_148940:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0008921=Trypsin=FE(28.8=100)

							
A:
NA

							
C2:
PF0008921=Trypsin=PD(19.7=57.0)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000095948





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000011392
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr3:46851080-46851645 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr22:53262456-53263026 
BtaINT0007175
([1])
Chicken
(galGal4)
chr4:51120669-51121087 
LOW PSI
GgaINT0072439
([2])
Chicken
(galGal3)
chr4:53216208-53216626 
LOW PSI
GgaINT0072439
(F1NMD1_CHICK)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GAAGGGGGAGTCTGTGGCTAT

				
R: 
CATTGGTGGGGAAATCCGGTC

				
Band lengths: 
358-875

			

		

	





	
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"