Special

MmuINT0127570 @ mm9

Intron Retention

Gene
ENSMUSG00000020323 | Prssl1
Description
protease, serine 57 [Source:MGI Symbol;Acc:MGI:1920356]
Coordinates
chr10:79244219-79247354:-
Coord C1 exon
chr10:79247091-79247354
Coord A exon
chr10:79246206-79247090
Coord C2 exon
chr10:79244219-79246205
Length
885 bp
Sequences
Splice sites
5' ss Seq
TCGGTATGA
5' ss Score
7.72
3' ss Seq
CAAACTTTTTTTCACTCCAGGCA
3' ss Score
7.9
Exon sequences
Seq C1 exon
TTGAACGGCTCTGCTGTCCTGGGCCCCGCTGTGAGGCTATTACGATTGCCTCGGAGAAATGCTAAGCCACCTGCTGCGGGCACGCGTTGCCATGTATCCGGCTGGGGCTTCGTGTCTGACTTTGAGGAGCCTCCGCCTGGACTGATGGAAGTCGAGGTGCGCATACTGGATCTGAGTGTCTGCAACAGCTCCTGGCAGGGCCAGCTGAATCCTGCCATGCTCTGCACTCACAGTGGGGACCGCCGGCGGCGTGGTTTCTGCTCG
Seq A exon
GTATGATTCTACATCCCGCTTGCTTGCCATATGGGAAAACCGAGGCACCCAAAAGGGGTCAGAGTTGGAAGCAGGCTACCTTTGAGAACTGAGTCCCATTAATGTTTGATTGGATGGAGAAATTGAGGCCCAGGGAAGTGACGGGTGATTGAGAATCATACAGAGTTACTGTCATTTCCGCAGCCTCTATGTATCCTGCACAAAAATGCCCAGGAGATGTATGTCTAAACATACGAGGCACGTCCAGTAGGGGGCGCAACAGATATCTCCCCAGGCCTGGGGTCCTAAAAGATGACAGCAATTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCTTCCTCTTTCTTTCTTTCTTTCTTCCTTCCTTCCTTCCTTTCTTTCCTTCTTTCTTATTTATTTATTATTATACATAAGTACACTGTAGCTGTCTTCAGACGCGCCAGAAGAGGGCTGTAAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTTAGGAAGAGCAGTCAAAGCCATCTTGCAAGCCCCCAACATAGCAATTTCTACATAGCAATTATGACAGTGATGCCAGTCAGTGAGTTGGGGTTTTTTAGGCTAAATACCGAGGAACACTAAAAGTACCACCTAGAGAATTAAGGAAAACTTCAGCTTCTTGGGGAGATGCATCAGAAGGCTATTGCACACAGCTATGTAGGCTTTGCATTGCTCAAAGACCACTTACCTGTCTGCTTATAAGAGACTCCTTTAGGGGGACAAGGACACAAGACCCCAGGAATAACTCTTAACCTCAAACTTTTTTTCACTCCAG
Seq C2 exon
GCAGATTCTGGGGGACCCTTGGTCTGTGGAAGACGGGCCCATGGTCTTGTATCTTTCTCAGGCCTCTGGTGTGGTGACCCCAAGACTCCGGATGTCTACACTCAAGTGTCAGCGTTTGTGACCTGGATCTGGGATGTGGTTCGGGCAAGTTCATCCCCTGGTTCTACTGGACGCTCTGTGAGGGCTGTTTGAATTTCAGCCCTCTACTGGGGCAGACATGAATAGCAACCTGTGCCCACTGGCTCACATCTGGAATATTCCATGGCTTGAGACTTGGGCTACAGGCATTCATCCTAAATGAACAATTGTACTGAGGGTTGACTACCTAGATACATGGTTTATGGTTTGATATATGGTCAACTCCAGCCGCCGCCCTTAATCCACAGTCACCCTTGTAACCAAGACCCACTATGCTGCCCCCTCCTGAACTCGTCGCTTCGGGGTGGCACCTGCTCCATCCCCTATGGATCGTGACAAACTCCATTAACACAGACAGGGACTGATATATGTAGTGAGGACAAAAATCCAAACAGTTATAACTCCACTCTTGCCATCCTAGCCTCAGTATAACAGTTGTCTTATCGTCTATCATTCCTCCTGGTTTGAGTTGAACCCTTCACTCGGGAGCCCCAGACAAGGTGCCATTTAAGGCCCTCTCGCCCCTGTACCTCTGGGACCCCAGAGGGTGCACTTCCTTTCCCTCCCACCCACTCAGCTCCAAGCTTCCCAGGGATTCTTGAACACGTGCCACGTGTCTCTGAAAGCTTTCGTGGATCATTCCACGCTCCATTCTAGTCCCAGGTTCAAAGGAAGGAGGCAGAAAATACACGGTGGTTTCTATTGTCTTTTATTTCCTTGGTGAGGCAGAACTCCAGGGTAGGGGAGGCTACCATAGCTCCCCTGCTAAGGACACTTTTGGGGATATTACAAGAAAGGCACAGCTGAGAACTGGAGGGTGGTGAGAAAGACCCTGGGAACTCCTTGCCCCCAAACTGGAGGGTTGGGCACCTTCCCATAGTCTTCTGTTGTGGTCTGACACCTTTTAAGTTTTTTTTTTTTCTTTTTTCAAAGATAAGATCTTATATAGCCCAGGCTGGCCTTGAACTCATAATGTGGCCAAGGATGAACTTAAACTCCTGATGCCCTTGCCTCTACTTTCTAAGTACTGGGATGAGGGGCCTGAGCCAACATGTCTGTTTATGCGGTGCTGGGGATGGAGCCCGGGCTCGGTGAACACTAGAAAAGCACTCTCTACCTAAATGCATTGCAGCTCCCCCTTTTGGCTTCCTTGAAGGCACTTGTGGGTGTGGGCAAGTTGCAGCAGCAGCTGTCAGAGTGAAGGCAGTAATTCAGTCTGGCCCCAAACAGCATCTGGCTGGTGTCACCACCTGCAGCTGGGCTTGGGGACGAGTGGGGCTGGTGGGGAACTGCGTAAAAACTAATGTGGGTGTGCAGGGTACAGGGCAGTGGGTGCTAGAGTGACTCTGGGTGCTCTGGGCACAGTGAATCCTAGTGTCCACTGGCTGTCCTGGGCCTGTGAGTCAGCCAGGGTCCAATGTTTCTACCAGGTTTCACCCTGAGTGGACCAAACAGGAATGAGCCCAGTGTTTCTCTGACCTGATGTTGCCCGCTCTGGTCTGAGGCCAGCCATATGCAAACACCAACTCATCGGCTGTGCCCTGCGACAGCTCCAGCCTAGAAAGCAGGTGGGGAGATCATAGCAGGGGGATCTCCATGCAGCTGCCATCCCTGGGCAGCAGGGGTCTTGGGTTCTAACTTTGATCCCAGTACCTGGGTGATGGCACATACCAACTATTATAAAAATCTCCCTTCAGTCCTTGTGATACGTGCTCAGGATCCCAGGGGGATCCCCAAGTGGTTCCAGGCCAGGTTTGGGAAATGTCCATGTGACATAAATTAGAATATTTTCTATAACAATAAATAAAATCGGGATGGCGTCAAATGCCAGGCCCAGTGGCTGCAGCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020323-Prssl1:NM_001042710:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.017 A=NA C2=0.111
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0008921=Trypsin=PU(97.3=98.6)

							
A:
NA

							
C2:
PF0008921=Trypsin=PD(18.7=65.6)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000020573





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000130448, ENSMUSP00000131642, ENSMUSP00000132215
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr19:685923-686924 
ALTERNATIVE
HsaINT0133050
(PRSS57)
Human
(hg19)
chr19:685923-686924 
LOW PSI
HsaINT0133050
(PRSSL1)
Rat
(rn6)
chr7:12803535-12804091 
RnoINT0118830
(Prss57)
Cow
(bosTau6)
chr7:44904411-44905749 
BtaINT0118805
(PRSS57)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr28:2241100-2241177 
LOW PSI
GgaINT0144669
(F1NFQ7_CHICK)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CGATTGCCTCGGAGAAATGCT

				
R: 
CCCAGATCCAGGTCACAAACG

				
Band lengths: 
355-1240

			

		

	





	
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"