Special

MmuINT0127470 @ mm9

Intron Retention

Gene
ENSMUSG00000070371 | Prss36
Description
protease, serine, 36 [Source:MGI Symbol;Acc:MGI:1924863]
Coordinates
chr7:135077653-135078141:-
Coord C1 exon
chr7:135077904-135078141
Coord A exon
chr7:135077795-135077903
Coord C2 exon
chr7:135077653-135077794
Length
109 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
ACATGGCCGCCTCTCTCTAGCCT
3' ss Score
5.96
Exon sequences
Seq C1 exon
AAAGATTCCAGTTGGAGCCTTCTGTGCCGTGAGGAGGGGACCTGGTTCCTGGCAGGATACAGAACCCTCTCAGATGGTTGTCTCCGACCCCGAGCCTTTTCCCCAATGCAGACTCATGGTCCGTGGATCCGTCATGTGACTCAGGGAGCTTACCTGGAGGACCAGCTAACCTGGGACTGGGGCCCTGAAGGGGAGGAGACCGAGAAACAGACTTGTCCCACACATACTGAGCACGGTG
Seq A exon
GTGAGCAGGGGTCTGTGAGGCTTCAGGAGTTCCTGGTAATTCTTAGGTCCTGGCGAGATGTTTAGGGGGCAGCCTTGGGACTCCCTCTGACATGGCCGCCTCTCTCTAG
Seq C2 exon
CCTGTGGCCTAAGGCCAAAATCCACTCCAGCTGGTGTGTTGTGGCCCTGGCTGACGGAGGTGCATGTGACTGGTGATAGAGTCTGCACTGGGATTCTGGTGGCCCCAGGCTGGGTCCTAGCAGCCACTCACTGTATTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070371-Prss36:NM_001081374:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.204 A=NA C2=0.049
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0008921=Trypsin=PD(18.1=52.5)

							
A:
NA

							
C2:
PF0008921=Trypsin=PU(20.5=85.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000091565





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000112659, ENSMUSP00000121706
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr16:31141611-31141722 
ALTERNATIVE
HsaINT1028210
(PRSS36)
Human
(hg19)
chr16:31152932-31153043 
HsaINT0132982
(PRSS36)
Rat
(rn6)
chr1:199381000-199381112 
ALTERNATIVE
RnoINT0118728
(Prss36)
Cow
(bosTau6)
chr25:27494268-27494379 
BtaINT0118739
(PRSS36)
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: 
GAGCCTTTTCCCCAATGCAGA

				
R: 
CACCAGAATCCCAGTGCAGAC

				
Band lengths: 
248-357

			

		

	





	
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"