Special

MmuINT0127400 @ mm9

Intron Retention

Gene
ENSMUSG00000027978 | Prss12
Description
protease, serine, 12 neurotrypsin (motopsin) [Source:MGI Symbol;Acc:MGI:1100881]
Coordinates
chr3:123185592-123188482:+
Coord C1 exon
chr3:123185592-123185788
Coord A exon
chr3:123185789-123188340
Coord C2 exon
chr3:123188341-123188482
Length
2552 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GTACTTAAACCACGACTTAGGTT
3' ss Score
1.79
Exon sequences
Seq C1 exon
ATACGGCAAACAGTCCTCTGTGAACCATTTTGATGGCAGCAACAGGCCCATATGGCTGGATGACGTCAGCTGCTCAGGAAAAGAAGTCAGCTTCATTCAGTGTTCCAGGAGACAGTGGGGAAGGCATGACTGCAGCCATAGAGAAGATGTGGGCCTCACCTGCTATCCTGACAGCGATGGACATAGGCTTTCTCCAG
Seq A exon
GTAAGGACAAGATGTTGCTCTTGAGGTCACAGATGTCCACTCTGTTCCTCCAACCAGTGGTCTGGAATGTGAAACATTTTCCATCCTTGATTTTATTGTCAAAAGGTCTGTTTTCCATGAAAAATAACCTTTTGAATTCTCAACTACCATTTCATGTCTAAATCTGGATTTGCTTTTCATTAAAAATCTAGATTGCTCAATTAAAAAATGTTTATAATTTAATCCGAAGAGTTTTTATGATAGGAGAGAGCCAACTCCCTTAGGTTGTCTACCTACCTTGAAAATCATAATTATGAACCTGAGAATGGGTCCCAGAGACATTTACACACACACACACACACACACACACACACACACACACAAGATTAAAACATAAAATATGGTTTGTCATTTTATTTAGAGTCTATACAAATTTAGGGTTGGAGAGCTGTCTCAGTGAAGAGCACTGGCTGTTCTTCTGAGGTCTGATATTTAATTCTAAGACGTCACATGTCAGCTCCCCACTACCTGTGAGTATAGTCTCAGGTGATCCCAGCCCCTCTTTTGGCCTCTGTAGGAACTAAGCATGCACAGACATTTTTACAAACAAAACACTCAATATACATAAAAGTAAATTAAATACAAATAGAATAGATGAAATTTTCTTAAAACTACTGCGATAGATCATGGAGATCTAATTCCATGTAGGTATATTTTTCCTAACATTTATACAAAGATTTGAAAGTATAAAAGATGAAAACTAAGAATCTTAAAAAATTTCATCAGGTTAAATTTTGTTTTTGGGAAATCACTGGTTTTTTTTAAACCTTCTTTTGTGAAGAACAGTAAAATTTCAGACACTTTAATAAGAAATGTAAAGCCTCAAATGTTCTGTTTCATACATAGCTAAAACTTGCCACAGTTTGAATGTTACTAGTTAGACGTGCATAGCACAGCCACGTAAACATTTTCTGGTTTTGACTCTGCTATGTGATTCTCTCTCCTGTCTCATGAAGTAATCTTGACTAAGGATTTAAGCTAAGGGTTGAATCATTCTGGAGACGACAAGGAAGGACGGAGAACTAAACATCGTCTTTTTTTTTCTCTCTCTTCATTAGGACATAGGTTACATGAATTAGGACACACCCCAATGACTTCACAGCTTATTTTGCCACAGTATGAGAGTCTCAGTGAGGGCTTTAAACAGCACCACGTGTTCTGTTTTTTTGGGGGGGGGAGGGGATGTAGATTTGGGTATAGAAAAATAAAATATGTTCATCTTGCCAACAAATCTTTTTAGGTAACAAATGTCAAATCATAATGCCTTAATCCTGTATGTTGTTTTAAGCATGCATTAAGTAATATTTTGATCATCAACTCCCTGATTCCACCTCTTTAGTTGTTCTGATTATTTTTACCCTTAAGTTTTCACTAGTTAGTTCTCCTGAAACCAGAAGACCCTTCCAGTAAAAAGGCAACCAAAGGTGCATGTATCAATCTGCTTGTGTTGGTGTGAAGTCCACAGATGGAGTGGTGTCAACACAGATATGATAGTTATGATCTCACAGTCAGGAAGTGAGACATTAAAAGCCAGGATCTCAGTGAAGTTGGCCATTTAAGAGGCAGGGACTTCAGAAGCAGGGACTGAAAAGGATACAGACTCTCCTGGTTCCTGTCCTCGACTTGTAGATGGCAGGTCTTCTCCTGGTGTCTTTTTTTGCATAATCTTTCTTTTTAAACTAAGTCTGTCTTCTCTTCCATGAGGACACCATTGTATAGACCTGGGATGTGGCTTCATGGCTGTACTTTTCTATCCTGGAGAGTGAAGACCCTGAGTGACCCCATTCATCTACCTTCTATGATCTCCATGTTGTGTATGTCTGTGTCTGTCTGTCTGTCTGTCTGCCTGTCTGTCTATCATGGCAGACAGAGATGTGACATTCTATCATTAATGCAACTTGAACCTTAATTTACGAGAAATCAGTTTCTTAGTTTTAAAATATTCATGTGTTTTGTGATTTAAGTCCTTCGTTTGAAATAAATAGTTGAGAAGGCACCCTTTCTAGCAGCCTGCCCAGCTTCGTTATCCAACTATGCCAATGTTTATACCTTCCTAAAAATTCTGACTTGGAATTATATATTCTAGCTACATTCATGAGTTACAGAACGACCTAAAACAAAAGAACACTTCTATTACTATTTAGAAGTTAGTTGTAATAAAAATGGCTAGCTTATGATTTAGAGTGCCATGCACCTGTTGTCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATTCATCCATCCATCCATCCATTCTTGTCCTCTACATATGAGAAATTCCGAATGCCAGGAACAGAAAGTTGAGCAAGATGAGCCCATTGATTGCAGGGCTTTAATAAAGACAGCAAGAGTGGATGCAGGAAAATACTGATATCTCACCTCCCTCTCCAAAGGAAAGGATTTTATATCTGATTTTTAAAAATTGTACTTCGTAAGGTTTTTTATGCTTTGACATAACCTGGCTTCTTTTGGCTTTTCTAATGTACTTAAACCACGACTTAG
Seq C2 exon
GTTTTCCCATCAGACTAGTGGATGGAGAGAATAAGAAGGAAGGACGAGTGGAGGTTTTTGTCAATGGCCAATGGGGAACAATCTGCGATGACGGATGGACCGATAAGCATGCAGCTGTGATCTGCCGGCAGCTTGGCTATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027978-Prss12:NM_008939:5
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:
PF0053013=SRCR=PD(56.7=82.1)

							
A:
NA

							
C2:
PF0053013=SRCR=PU(41.8=85.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000029603





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr4:118308578-118313200 
LOW PSI
HsaINT0132933
(PRSS12)
Human
(hg19)
chr4:119229733-119234355 
LOW PSI
HsaINT0132933
(PRSS12)
Rat
(rn6)
chr2:227692678-227695266 
LOW PSI
RnoINT0118665
(Prss12)
Cow
(bosTau6)
chr6:7981660-7987847 
LOW PSI
BtaINT0118704
(PRSS12)
Chicken
(galGal4)
chr4:54451423-54454487 
LOW PSI
GgaINT0073577
(PRSS12)
Chicken
(galGal3)
chr4:56588028-56591092 
LOW PSI
GgaINT0073577
(F1NH25_CHICK)
Zebrafish
(danRer10)
chr1:19402345-19413529 
LOW PSI
DreINT0120781
(prss12)
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"