rnase v1 s1 nuclease digested  (Thermo Fisher)


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    Name:
    S1 Nuclease
    Description:
    S1 Nuclease is a single strand specific endonuclease that hydrolyzes single stranded RNA or DNA into 5 mononucleotides The enzyme will hydrolyze single stranded regions in duplex DNA such as loops and gaps S1 Nuclease is stable at 65°C Applications Nuclease mapping techniques 1 2 Removal of single stranded regions from double stranded DNA 3 Exo III ordered sequencing 4 Source Isolated from Aspergillus oryzae Performance and Quality Testing Double strand specific deoxyribonuclease and phosphatase assays Unit Definition One unit hydrolyzes 1 µg of denatured DNA to acid soluble material in 1 min at 37°C Unit Reaction Conditions 30 mM sodium acetate pH 4 6 50 mM NaCl 1 mM zinc acetate 0 5 mg ml heat denatured DNA 5 v v glycerol and enzyme in 0 5 ml for 10 min at 37°C
    Catalog Number:
    18001016
    Price:
    None
    Applications:
    Cloning|DNA & RNA Purification & Analysis|Nuclease Protection Assays|Restriction Enzyme Cloning|Nucleic Acid Gel Electrophoresis & Blotting
    Category:
    Proteins Enzymes Peptides
    Buy from Supplier


    Structured Review

    Thermo Fisher rnase v1 s1 nuclease digested
    Schematic of RNA structure probing by PARS in zebrafish. Poly-A RNA from zebrafish is folded in-vitro. The folded RNA is cleaved by <t>RNase</t> V1 and <t>S1</t> nuclease separately. The enzyme cut sites generate 5’P ends and 3’ OH ends at the cleaved sites. Long fragments generated by single-hit kinetics are further fragmented by alkaline hydrolysis, which blocks the 3′ site of the enzyme-cut fragments. Sequencing adapters are ligated to the 5′ end followed by alkaline phosphatase treatment to 3’ P group. Adapters are ligated to 3’ends followed cDNA synthesis and PCR purification of the library. Appropriate size of the library is maintained by purification by nucleic acid beads. Sequenced reads are aligned back to the genome and only unique reads with the correct read start positions are considered for PARS score calculation
    S1 Nuclease is a single strand specific endonuclease that hydrolyzes single stranded RNA or DNA into 5 mononucleotides The enzyme will hydrolyze single stranded regions in duplex DNA such as loops and gaps S1 Nuclease is stable at 65°C Applications Nuclease mapping techniques 1 2 Removal of single stranded regions from double stranded DNA 3 Exo III ordered sequencing 4 Source Isolated from Aspergillus oryzae Performance and Quality Testing Double strand specific deoxyribonuclease and phosphatase assays Unit Definition One unit hydrolyzes 1 µg of denatured DNA to acid soluble material in 1 min at 37°C Unit Reaction Conditions 30 mM sodium acetate pH 4 6 50 mM NaCl 1 mM zinc acetate 0 5 mg ml heat denatured DNA 5 v v glycerol and enzyme in 0 5 ml for 10 min at 37°C
    https://www.bioz.com/result/rnase v1 s1 nuclease digested/product/Thermo Fisher
    Average 99 stars, based on 2 article reviews
    Price from $9.99 to $1999.99
    rnase v1 s1 nuclease digested - by Bioz Stars, 2020-07
    99/100 stars

    Related Products / Commonly Used Together

    rna
    alkaline hydrolysis buffer

    Images

    1) Product Images from "RNA secondary structure profiling in zebrafish reveals unique regulatory features"

    Article Title: RNA secondary structure profiling in zebrafish reveals unique regulatory features

    Journal: BMC Genomics

    doi: 10.1186/s12864-018-4497-0

    Schematic of RNA structure probing by PARS in zebrafish. Poly-A RNA from zebrafish is folded in-vitro. The folded RNA is cleaved by RNase V1 and S1 nuclease separately. The enzyme cut sites generate 5’P ends and 3’ OH ends at the cleaved sites. Long fragments generated by single-hit kinetics are further fragmented by alkaline hydrolysis, which blocks the 3′ site of the enzyme-cut fragments. Sequencing adapters are ligated to the 5′ end followed by alkaline phosphatase treatment to 3’ P group. Adapters are ligated to 3’ends followed cDNA synthesis and PCR purification of the library. Appropriate size of the library is maintained by purification by nucleic acid beads. Sequenced reads are aligned back to the genome and only unique reads with the correct read start positions are considered for PARS score calculation
    Figure Legend Snippet: Schematic of RNA structure probing by PARS in zebrafish. Poly-A RNA from zebrafish is folded in-vitro. The folded RNA is cleaved by RNase V1 and S1 nuclease separately. The enzyme cut sites generate 5’P ends and 3’ OH ends at the cleaved sites. Long fragments generated by single-hit kinetics are further fragmented by alkaline hydrolysis, which blocks the 3′ site of the enzyme-cut fragments. Sequencing adapters are ligated to the 5′ end followed by alkaline phosphatase treatment to 3’ P group. Adapters are ligated to 3’ends followed cDNA synthesis and PCR purification of the library. Appropriate size of the library is maintained by purification by nucleic acid beads. Sequenced reads are aligned back to the genome and only unique reads with the correct read start positions are considered for PARS score calculation

    Techniques Used: In Vitro, Generated, Sequencing, Polymerase Chain Reaction, Purification

    Comparison of RNA structures of ubc 3’UTR as determined by PARS based pairing probability and enzymatic footprinting using RNase V1 and S1 Nuclease. a . Bar plot represents PARS scores of 3’UTR region of ubiquitin c (ubc) . Out of 105 positions, 87 positions are captured by PARS. b . Enzymatic footprinting of ubc 3’UTR probed by S1 Nuclease and RNase V1. Nucleotide positions are correlated with alkaline hydrolysis (AH) ladder and RNase T1 (G) ladder. Positions with similar structural pattern with PARS scores are highlighted. Red dots indicate unpaired positions; green indicates paired positions while yellow represents ambiguous regions. c . Heatmap representing secondary structure of 68 positions of ubc 3’UTR as determined by PARS and enzymatic footprinting (FP). Top panel represents PARS pairing probability; bottom panel indicates enzymatic footprinting pairing probability; middle panel represents the consensus between the two (PARS: FP). Red represents unpaired, green represents paired and yellow represents ambiguous regions
    Figure Legend Snippet: Comparison of RNA structures of ubc 3’UTR as determined by PARS based pairing probability and enzymatic footprinting using RNase V1 and S1 Nuclease. a . Bar plot represents PARS scores of 3’UTR region of ubiquitin c (ubc) . Out of 105 positions, 87 positions are captured by PARS. b . Enzymatic footprinting of ubc 3’UTR probed by S1 Nuclease and RNase V1. Nucleotide positions are correlated with alkaline hydrolysis (AH) ladder and RNase T1 (G) ladder. Positions with similar structural pattern with PARS scores are highlighted. Red dots indicate unpaired positions; green indicates paired positions while yellow represents ambiguous regions. c . Heatmap representing secondary structure of 68 positions of ubc 3’UTR as determined by PARS and enzymatic footprinting (FP). Top panel represents PARS pairing probability; bottom panel indicates enzymatic footprinting pairing probability; middle panel represents the consensus between the two (PARS: FP). Red represents unpaired, green represents paired and yellow represents ambiguous regions

    Techniques Used: Footprinting

    2) Product Images from "RNA secondary structure profiling in zebrafish reveals unique regulatory features"

    Article Title: RNA secondary structure profiling in zebrafish reveals unique regulatory features

    Journal: BMC Genomics

    doi: 10.1186/s12864-018-4497-0

    Schematic of RNA structure probing by PARS in zebrafish. Poly-A RNA from zebrafish is folded in-vitro. The folded RNA is cleaved by RNase V1 and S1 nuclease separately. The enzyme cut sites generate 5’P ends and 3’ OH ends at the cleaved sites. Long fragments generated by single-hit kinetics are further fragmented by alkaline hydrolysis, which blocks the 3′ site of the enzyme-cut fragments. Sequencing adapters are ligated to the 5′ end followed by alkaline phosphatase treatment to 3’ P group. Adapters are ligated to 3’ends followed cDNA synthesis and PCR purification of the library. Appropriate size of the library is maintained by purification by nucleic acid beads. Sequenced reads are aligned back to the genome and only unique reads with the correct read start positions are considered for PARS score calculation
    Figure Legend Snippet: Schematic of RNA structure probing by PARS in zebrafish. Poly-A RNA from zebrafish is folded in-vitro. The folded RNA is cleaved by RNase V1 and S1 nuclease separately. The enzyme cut sites generate 5’P ends and 3’ OH ends at the cleaved sites. Long fragments generated by single-hit kinetics are further fragmented by alkaline hydrolysis, which blocks the 3′ site of the enzyme-cut fragments. Sequencing adapters are ligated to the 5′ end followed by alkaline phosphatase treatment to 3’ P group. Adapters are ligated to 3’ends followed cDNA synthesis and PCR purification of the library. Appropriate size of the library is maintained by purification by nucleic acid beads. Sequenced reads are aligned back to the genome and only unique reads with the correct read start positions are considered for PARS score calculation

    Techniques Used: In Vitro, Generated, Sequencing, Polymerase Chain Reaction, Purification

    Comparison of RNA structures of ubc 3’UTR as determined by PARS based pairing probability and enzymatic footprinting using RNase V1 and S1 Nuclease. a . Bar plot represents PARS scores of 3’UTR region of ubiquitin c (ubc) . Out of 105 positions, 87 positions are captured by PARS. b . Enzymatic footprinting of ubc 3’UTR probed by S1 Nuclease and RNase V1. Nucleotide positions are correlated with alkaline hydrolysis (AH) ladder and RNase T1 (G) ladder. Positions with similar structural pattern with PARS scores are highlighted. Red dots indicate unpaired positions; green indicates paired positions while yellow represents ambiguous regions. c . Heatmap representing secondary structure of 68 positions of ubc 3’UTR as determined by PARS and enzymatic footprinting (FP). Top panel represents PARS pairing probability; bottom panel indicates enzymatic footprinting pairing probability; middle panel represents the consensus between the two (PARS: FP). Red represents unpaired, green represents paired and yellow represents ambiguous regions
    Figure Legend Snippet: Comparison of RNA structures of ubc 3’UTR as determined by PARS based pairing probability and enzymatic footprinting using RNase V1 and S1 Nuclease. a . Bar plot represents PARS scores of 3’UTR region of ubiquitin c (ubc) . Out of 105 positions, 87 positions are captured by PARS. b . Enzymatic footprinting of ubc 3’UTR probed by S1 Nuclease and RNase V1. Nucleotide positions are correlated with alkaline hydrolysis (AH) ladder and RNase T1 (G) ladder. Positions with similar structural pattern with PARS scores are highlighted. Red dots indicate unpaired positions; green indicates paired positions while yellow represents ambiguous regions. c . Heatmap representing secondary structure of 68 positions of ubc 3’UTR as determined by PARS and enzymatic footprinting (FP). Top panel represents PARS pairing probability; bottom panel indicates enzymatic footprinting pairing probability; middle panel represents the consensus between the two (PARS: FP). Red represents unpaired, green represents paired and yellow represents ambiguous regions

    Techniques Used: Footprinting

    Related Articles

    Magnetic Beads:

    Article Title: Target gene search for the metal-responsive transcription factor MTF-1
    Article Snippet: .. Following hybridization, single-stranded cDNA was digested with S1 nuclease and the whole reaction was mixed with 50 µl of Dynal M-280 streptavidin magnetic beads. .. After 2 h incubation at room temperature on a wheel, the beads were extracted using a magnetic concentrator and tester homohybrids were removed by Bam HI digestion.

    Mutagenesis:

    Article Title: Structural probing of a pathogenic tRNA dimer
    Article Snippet: .. Probing experiments were performed on both the wild-type and mutant A3243G hs mt tRNALeu(UUR) transcripts using 25 and 6 × 10−2 U of nuclease S1 (Fermentas) and RNase T2 (Sigma), respectively. ..

    Real-time Polymerase Chain Reaction:

    Article Title: Spacer-length DNA intermediates are associated with Cas1 in cells undergoing primed CRISPR adaptation
    Article Snippet: .. After treating total DNA prepared from induced an uninduced cultures with S1 nuclease, qPCR was performed with a primer pair amplifying a 210 nt pG8mut fragment containing the HS1 protospacer. ..

    Incubation:

    Article Title: Evidence that Plasmid-Borne Botulinum Neurotoxin Type B Genes Are Widespread among Clostridium botulinum Serotype B Strains
    Article Snippet: .. For the treatment with S1 nuclease, single slices of some agarose plugs were washed twice in S1 nuclease buffer (50 mM NaCl, 30 mM sodium acetate [pH 4.5], 5 mM ZnSO4 ) and incubated with 1 unit of Aspergillus oryzae S1 nuclease (MBI Fermentas, Vilnius, Lithuania) in 200 µl of S1 buffer for 10 min at 37°C. .. PFGE of undigested or S1-digested DNA was carried out in a contour-clamped homogeneous electric field apparatus (CHEF Mapper apparatus, BioRad Laboratories, Hercules, CA).

    Pulsed-Field Gel:

    Article Title: Heavy Metal Resistance Genes Are Associated with blaNDM-1- and blaCTX-M-15-Carrying Enterobacteriaceae
    Article Snippet: .. In this study, the locations of the pcoA , merA , silC , and arsA genes were analyzed by pulsed-field gel electrophoresis with S1 nuclease (S1-PFGE) (Invitrogen Abingdon, UK). ..

    Hybridization:

    Article Title: Target gene search for the metal-responsive transcription factor MTF-1
    Article Snippet: .. Following hybridization, single-stranded cDNA was digested with S1 nuclease and the whole reaction was mixed with 50 µl of Dynal M-280 streptavidin magnetic beads. .. After 2 h incubation at room temperature on a wheel, the beads were extracted using a magnetic concentrator and tester homohybrids were removed by Bam HI digestion.