Special

MmuINT0162610 @ mm9

Intron Retention

Gene
ENSMUSG00000072845 | Tmprss11a
Description
transmembrane protease, serine 11a [Source:MGI Symbol;Acc:MGI:2684853]
Coordinates
chr5:86849027-86851690:-
Coord C1 exon
chr5:86851519-86851690
Coord A exon
chr5:86849287-86851518
Coord C2 exon
chr5:86849027-86849286
Length
2232 bp
Sequences
Splice sites
5' ss Seq
AACGTAAGT
5' ss Score
10.74
3' ss Seq
ATGCTACTAATCTTTCCTAGCAA
3' ss Score
4.73
Exon sequences
Seq C1 exon
ATTGTGGCAAGCGAGCTATCCCATTAATTGCCAACAGAATAGTGTCTGGAAACCCTGCAGCTAAGGGTGCCTGGCCGTGGCAAGTTTCCCTTCAGCGAAGCAACATCCATCAGTGTGGGGGCACGTTGATTGGTAACATGTGGGTCGTCACTGCAGCACACTGTTTTAGAAC
Seq A exon
GTAAGTTATTGAACTTAAGTCAGCCCCCAGTTTTCCTTAAAACTGTATTTCCACATTCTAGTAACAATCAAGTAAAATAAGAAAATATTCCTGATGCTTTCTAAAGCCATGTTGTACTTGCATTCTTATTTGGAAAGTTTAGTGGGAATAAAGGAGTACTGAACATCATCCCAGAATCCATTAATTAAGTCTTCAGAGTTTAACTAAAGAAATTGCAACAATAGCAGAAGTCATTCTAACACAATATACTGATAAATCTAGCCCTTTGTTAAGTAATGCTCTCCACTTAACATTAGTGCCTGTTTTATTAAGCACTTGGTCAGTCTCATGTGGTAAGTAATAAACTGAAGATAAAGTCTTCAAGGAGGGCAGGGACTGGGTGATCATTGATGCAGAACTGCTCAGGTCAAATTTAAACACATTGGTGGCCGAAGTTTGATTGTGATTTGCATTACATCTTTAGAAATCAAAGCTGGAATATACAGCGTGTGAGACCTAAGCTGGCCAGATCTTACATGGGAGAGTAAATTCTGAATTGGGTGGAGTACTTAAAGAGAGCTTAACAAGATGGAATATTGTTACAAAGTCTCAGATGACAAAGGGGCAGGCACCACCATCTGCCTTGCCACTCAAAGAGCAGTTCACAGAGCAGCAGCTCTCACATCACTAAGGAATAGATGAGATATGAAAATGGTTAAACCCTGTCCCAGAGCTACAGACTCAGGAGCTGCATTTTAATAAGAGCCCCCAAATCATTTGTGTGTACATTAATACTGGAGAAACATTGTCCTATGTGATGCAATCTTATTCTGAGAAATCTGTAAAACAGATAATAGAATTGTATTAACTGATCTGAAGTCCTGTCGGATTTCTGGAGGAGACTCAGAGTCAAGAAAGAACTTGCCAGCAGGCAGAGCCACTCATAGATGAAAGGGATGCCAAGATGAACAAAGGGATTCCTGGGTGGAGCAAGCCTCCATCTGCAGAGGGATCAAGCAGAGGCAATGGAGAGTTAACAGTGGCTTTATAGCAGCAACCAGCACAATTATTAAGCTCTGTGGTGCTACAGGCACTTGATTAAACACTCTAAAATTTATTTTATATAATTCTTAGACCCCTCCCTCCATGTAAGGCCTGATGGGGAAGTTCTTTCACTGAGACGTGAATCTAGAAGTACTCAAAAGTACAGATGTGTAAAACAAACAACAGAAAATACCACGTTATTATTTATTCAATGTATTATTTAATGACATATCATTAAAAATAAAAAACTACCATATTGCTTCAATCTAGTATTGAATAAACTCAAAGTACAGACATGTAAAACAAAAAAACAGAAAATACCATGTTATCATTTATTCGATGTATTATTTAACGACATATCATTAAAAATAAAAACTACCATATTGCTTCAATCTAGTATTGAATAAACATGAGAACTGACTACATTAAAGATTAATATCTCAGAGGGATGTTCTAGCATCAAAAGTTATCATACCTAAGTGAGACTATGTAACTTCCACTTTTAAAACATCAAAGTATTCCACTATCCCTTAAATATAGCCTAACCATTTTCTCTCTCCCCATAAGACACTCTGGTCCCCACCTACCTCCTTTCCAGCATCATCTTCCACTGTTATTCCATTGGTGTTGTAAACTGGCCCAAAGCCCACCTGGAGACTTGCCTCCCTCATCATCTCATAGCTCAAGATTCCCCATCAGCCATGTCTTACCCTAAATCTGCTGTTCTAAAATAAAATTTAAAAAATGCCTTCCATATTCTTACACCACTAGTACCTTACCCATTGTCCTATCTTATTTTATTTATAATCTTTAGAACTCATATTATTTGTCAACATTTTAACATATGTCTATAATTTTTCTTTTCACCTAAAATACTCATTGAACTGAAAATTTACATTTTGTTCACTTCCTTCATATGCATGATTAATAAGTATTTGCAGAGGGAACAAGCAAATAAAATTATATGTACAGTTCTAAAACTCAATAATTAAATATTAAATTTAACGGCAATTGGCTATCGGTATATGTTCTTATATTTAAGTCACGAGCAACAGGCATATTTAAATAGCTAATGAGACTATAATTGCAACCAGCTATTGTCAGGGTGGTATGTTCTACTGTATTAACCTAAATGCATGTTGTTAAATCATCTAAATGGTGTAGTTAATGGATACTGTACATCTCATGTATGCTACTAATCTTTCCTAG
Seq C2 exon
CAATTCAAACCCTCGCCAATGGACTCTTAGTTTTGGAACAACAATAAATCCTCCCTTAATGAAAAGAGACGTCAGAAGAATTATTATGCATGAAAGGTATCGTCCCCCAGCAAGAGACCATGACATTGCTCTAGTGCAGTTTTCTCCCAGAGTCACCTTTTCGGATGAAGTGCGCCGAATTTGTTTGCCAGAACCCTCTGCATCTTTCCCACCAAATTCAACTGTCTACATCACAGGATTCGGAGCACTTTACTATGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000072845-Tmprss11a:NM_001033233:6
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:
PF0008921=Trypsin=PU(19.5=75.9)

							
A:
NA

							
C2:
PF0008921=Trypsin=FE(38.5=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000098634





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr4:67919233-67922754 
HsaINT1044640
(TMPRSS11A)
Human
(hg19)
chr4:68784951-68788472 
HsaINT0169626
(TMPRSS11A)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr6:85344397-85356718 
BtaINT0150357
(TMPRSS11A)
Chicken
(galGal4)
chr4:51122316-51122552 
LOW PSI
GgaINT0072437
([1])
Chicken
(galGal3)
chr4:53217855-53218091 
LOW PSI
GgaINT0072437
(F1NMD1_CHICK)
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"