ecorv  (TaKaRa)

 
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    Name:
    EcoR V
    Description:
    GAT | ATCCTA | TAG
    Catalog Number:
    1042b
    Price:
    None
    Size:
    D
    Category:
    EcoRV Restriction enzymes Cloning
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    Structured Review

    TaKaRa ecorv
    Conserved Domains in Karma . (A) Karma structure. Open boxes depict the two open reading frames of Karma (ORF1 and ORF2). ORF2 contains the endonuclease ( en ) and reverse transcriptase ( rt ) domains. Black boxes depict Cys-rich motifs. Vertical lines above the boxes depict the sites of HpaII and MspI cleavage, and vertical lines below the boxes depict the sites of <t>EcoRV</t> cleavage. Hatched boxes depict probes A (1317 bp) and B (1498 bp) used in <t>DNA</t> gel blot analysis. Bar = 1 kb. (B) Alignment of the conserved reverse transcriptase domain. Gray boxes indicate residues conserved in at least seven of the eight sequences depicted. I to VII denote the seven domains characteristic of reverse transcriptases. Retrotransposon sequences are from rice Karma , maize cin4 , lily del2 , Arabidopsis Ta11-1 , Cannabis LINE-CS, human LINE-1, frog Tx1 , and fruit fly R2Dm .
    GAT | ATCCTA | TAG
    https://www.bioz.com/result/ecorv/product/TaKaRa
    Average 94 stars, based on 40 article reviews
    Price from $9.99 to $1999.99
    ecorv - by Bioz Stars, 2020-08
    94/100 stars

    Images

    1) Product Images from "Two-Step Regulation and Continuous Retrotransposition of the Rice LINE-Type Retrotransposon Karma"

    Article Title: Two-Step Regulation and Continuous Retrotransposition of the Rice LINE-Type Retrotransposon Karma

    Journal: The Plant Cell

    doi: 10.1105/tpc.011809

    Conserved Domains in Karma . (A) Karma structure. Open boxes depict the two open reading frames of Karma (ORF1 and ORF2). ORF2 contains the endonuclease ( en ) and reverse transcriptase ( rt ) domains. Black boxes depict Cys-rich motifs. Vertical lines above the boxes depict the sites of HpaII and MspI cleavage, and vertical lines below the boxes depict the sites of EcoRV cleavage. Hatched boxes depict probes A (1317 bp) and B (1498 bp) used in DNA gel blot analysis. Bar = 1 kb. (B) Alignment of the conserved reverse transcriptase domain. Gray boxes indicate residues conserved in at least seven of the eight sequences depicted. I to VII denote the seven domains characteristic of reverse transcriptases. Retrotransposon sequences are from rice Karma , maize cin4 , lily del2 , Arabidopsis Ta11-1 , Cannabis LINE-CS, human LINE-1, frog Tx1 , and fruit fly R2Dm .
    Figure Legend Snippet: Conserved Domains in Karma . (A) Karma structure. Open boxes depict the two open reading frames of Karma (ORF1 and ORF2). ORF2 contains the endonuclease ( en ) and reverse transcriptase ( rt ) domains. Black boxes depict Cys-rich motifs. Vertical lines above the boxes depict the sites of HpaII and MspI cleavage, and vertical lines below the boxes depict the sites of EcoRV cleavage. Hatched boxes depict probes A (1317 bp) and B (1498 bp) used in DNA gel blot analysis. Bar = 1 kb. (B) Alignment of the conserved reverse transcriptase domain. Gray boxes indicate residues conserved in at least seven of the eight sequences depicted. I to VII denote the seven domains characteristic of reverse transcriptases. Retrotransposon sequences are from rice Karma , maize cin4 , lily del2 , Arabidopsis Ta11-1 , Cannabis LINE-CS, human LINE-1, frog Tx1 , and fruit fly R2Dm .

    Techniques Used: Western Blot

    2) Product Images from "Production of dumbbell probe through hairpin cleavage-ligation and increasing RCA sensitivity and specificity by circle to circle amplification"

    Article Title: Production of dumbbell probe through hairpin cleavage-ligation and increasing RCA sensitivity and specificity by circle to circle amplification

    Journal: Scientific Reports

    doi: 10.1038/srep29229

    Verification and optimization of hairpin (HP) cleavage-ligation. ( A ) Schematic illustration of dumbbell probe (DP) formation by cleavage-ligation of hairpin. ( B ) DP formation analyzed by PAGE. Only after cleavage, hairpin can be ligated into a band-shifted DP, which can be recleaved into hairpin. ( C ) All of the three kinds of cleaved ends produced by EcoRI, PstI and EcoRV are suitable to form DP efficiently. ( D ) Effects of stem length at the end side of the RE recognition sequence on DP formation. NsiI recognition sequence is underlined. ( E ) Effects of stem length at the loop side of the RE recognition sequence on DP formation. EcoRI recognition sequence is underlined.
    Figure Legend Snippet: Verification and optimization of hairpin (HP) cleavage-ligation. ( A ) Schematic illustration of dumbbell probe (DP) formation by cleavage-ligation of hairpin. ( B ) DP formation analyzed by PAGE. Only after cleavage, hairpin can be ligated into a band-shifted DP, which can be recleaved into hairpin. ( C ) All of the three kinds of cleaved ends produced by EcoRI, PstI and EcoRV are suitable to form DP efficiently. ( D ) Effects of stem length at the end side of the RE recognition sequence on DP formation. NsiI recognition sequence is underlined. ( E ) Effects of stem length at the loop side of the RE recognition sequence on DP formation. EcoRI recognition sequence is underlined.

    Techniques Used: Ligation, Polyacrylamide Gel Electrophoresis, Produced, Sequencing

    3) Product Images from "MYCN Transgenic Zebrafish Model with the Characterization of Acute Myeloid Leukemia and Altered Hematopoiesis"

    Article Title: MYCN Transgenic Zebrafish Model with the Characterization of Acute Myeloid Leukemia and Altered Hematopoiesis

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0059070

    Generation of Tg( MYCN :HSE:EGFP) zebrafish line. (A) Schematic diagram of the structure of PSGH2/MYCN recombinant plasmid. A mouse-MYCN fragment was cloned from HA-MYCN plasmid and inserted into the EcoRI and EcoRV sites of the PSGH2 vector. (B) A schematic presentation of the heat shock element (HSE) promoter. The artificial promoter contains eight multimerized heat shock elements flanked by two minimal promoters in opposed orientation (black arrowhead). EGFP and MYCN are expressed from the bidirectional promoter. The vector is flanked by I-SceI meganuclease sites (arrows). pA, SV40 polyadenylation signal. (C) Transgenic verification by qRT-PCR: M: TAKARA DL2000 marker; lane 1: Blank control (double distilled water); lane 2 and 3: WT and Tg F1 generation embryos at 3 dpf, respectively; lane 4: Positive control (plasmid). (D) Transgenic verification by westernblot: lane 1: WT embryo at 3 dpf; lane 2 and 3: Tg F1 and F2 generation embryos at 3 dpf, respectively. (E–F) EGFP (+) F0 mosaic zebrafish at 24 hours (×50) and 60 days post microinjection (×7.5). (G–H) EGFP (+) F1 Tg zebrafish at 24 hpf (×50) and 60 dpf (×10). (I) Expression of total MYCN (murine exogenous and zebrafish endogenous expression), which was increased gradually in Tg F1, F2 generation fish comparing with that in WT. (J) Expression of NDRG1 , which is negative controlled by MYCN in human, was keeping a low lever in Tg F1 and F2 generation. **, P
    Figure Legend Snippet: Generation of Tg( MYCN :HSE:EGFP) zebrafish line. (A) Schematic diagram of the structure of PSGH2/MYCN recombinant plasmid. A mouse-MYCN fragment was cloned from HA-MYCN plasmid and inserted into the EcoRI and EcoRV sites of the PSGH2 vector. (B) A schematic presentation of the heat shock element (HSE) promoter. The artificial promoter contains eight multimerized heat shock elements flanked by two minimal promoters in opposed orientation (black arrowhead). EGFP and MYCN are expressed from the bidirectional promoter. The vector is flanked by I-SceI meganuclease sites (arrows). pA, SV40 polyadenylation signal. (C) Transgenic verification by qRT-PCR: M: TAKARA DL2000 marker; lane 1: Blank control (double distilled water); lane 2 and 3: WT and Tg F1 generation embryos at 3 dpf, respectively; lane 4: Positive control (plasmid). (D) Transgenic verification by westernblot: lane 1: WT embryo at 3 dpf; lane 2 and 3: Tg F1 and F2 generation embryos at 3 dpf, respectively. (E–F) EGFP (+) F0 mosaic zebrafish at 24 hours (×50) and 60 days post microinjection (×7.5). (G–H) EGFP (+) F1 Tg zebrafish at 24 hpf (×50) and 60 dpf (×10). (I) Expression of total MYCN (murine exogenous and zebrafish endogenous expression), which was increased gradually in Tg F1, F2 generation fish comparing with that in WT. (J) Expression of NDRG1 , which is negative controlled by MYCN in human, was keeping a low lever in Tg F1 and F2 generation. **, P

    Techniques Used: Recombinant, Plasmid Preparation, Clone Assay, Transgenic Assay, Quantitative RT-PCR, Marker, Positive Control, Expressing, Fluorescence In Situ Hybridization

    4) Product Images from "RUNX1-Evi-1 fusion gene inhibited differentiation and apoptosis in myelopoiesis: an in vivo study"

    Article Title: RUNX1-Evi-1 fusion gene inhibited differentiation and apoptosis in myelopoiesis: an in vivo study

    Journal: BMC Cancer

    doi: 10.1186/s12885-015-1961-y

    Generation of Tg(RE:HSE:EGFP) zebrafish line. ( a ) Schematic diagram of the structure of PSGH2/RUNX1-Evi-1 recombinant plasmid. A human-RUNX1-Evi-1 fragment was cloned into the EcoRI and EcoRV sites of the PSGH2 vector. ( b ) A schematic presentation of the eight multimerized heat shock element (HSE) promoter, which is flanked by two minimal promoters in opposed orientation (black arrowhead) to bidirectionally induce EGFP and RUNX1-Evi-1 expression. The vector is flanked by I-SceI meganuclease sites (arrows). pA, SV40 polyadenylation signal. ( c ) Transgenic verification by PCR: M: TAKARA DL2000 marker; lane 1 and 2: wild type and Tg(RE:HSE:EGFP) zebrafish larvae at 3 dpf, respectively; lane 3: PSGH2/RUNX1-Evi-1 plasmid; lane 4: double distilled water. ( d ) EGFP expression in Tg(RE:HSE:EGFP) zebrafish F2 generation at 3dpf (×4)
    Figure Legend Snippet: Generation of Tg(RE:HSE:EGFP) zebrafish line. ( a ) Schematic diagram of the structure of PSGH2/RUNX1-Evi-1 recombinant plasmid. A human-RUNX1-Evi-1 fragment was cloned into the EcoRI and EcoRV sites of the PSGH2 vector. ( b ) A schematic presentation of the eight multimerized heat shock element (HSE) promoter, which is flanked by two minimal promoters in opposed orientation (black arrowhead) to bidirectionally induce EGFP and RUNX1-Evi-1 expression. The vector is flanked by I-SceI meganuclease sites (arrows). pA, SV40 polyadenylation signal. ( c ) Transgenic verification by PCR: M: TAKARA DL2000 marker; lane 1 and 2: wild type and Tg(RE:HSE:EGFP) zebrafish larvae at 3 dpf, respectively; lane 3: PSGH2/RUNX1-Evi-1 plasmid; lane 4: double distilled water. ( d ) EGFP expression in Tg(RE:HSE:EGFP) zebrafish F2 generation at 3dpf (×4)

    Techniques Used: Recombinant, Plasmid Preparation, Clone Assay, Expressing, Transgenic Assay, Polymerase Chain Reaction, Marker

    Related Articles

    Clone Assay:

    Article Title: Yeast two-hybrid interaction partner screening through in vivo Cre-mediated Binary Interaction Tag generation
    Article Snippet: .. The pGADt7Lox71 was created by cloning the EcoRV and PvuII fragment of pC-Act.2revlox71 into SphI-, BsrGI-digested, blunt-ended pGADt7 (Clontech). .. The pCDlox66HoxA1 was cloned full length from pKS-HoxA1 , an MmeI site and lox66 sequence were included in the 3′ PCR primer and cloned into AvrII- and PstI-digested pCD.2 ( ).

    Article Title: Effect of ZNRD1 gene antisense RNA on drug resistant gastric cancer cells
    Article Snippet: .. EcoR V, Xba I, BamH I, cloning vector pUCm-T and T4 DNA ligase were purchased from Takara; MTT, DEPC from Sigma. .. TRIZOL, M-MuLV RT enzyme, Taq DNA polymerase, DMEM, Lipofectamine and G418 were products of Gibco BRL, and Primer from Sangon, Shanghai.

    Transfection:

    Article Title: Targeted Therapy of VEGFR2 and EGFR Significantly Inhibits Growth of Anaplastic Thyroid Cancer in an Orthotopic Murine Model
    Article Snippet: .. The luciferase cDNA expression vector used in the transfection of 8505C was constructed by obtaining Luciferase cDNA from pGL3 vector by digesting with SMA I and XBA I restriction enzymes and ligating to ECOR V and NHE1 sites of pIRESneo3 vector (Clontech, Mountain View, CA). .. After confirming DNA sequence, a stable cell line was made by transfecting the luciferase-pIRESNneo3 plasmid into 8505C cells using lipofectamine 2000 (Invitrogen, Carlsbad, CA) and selected using 600μg/mL of G418 for 3 weeks.

    Luciferase:

    Article Title: Targeted Therapy of VEGFR2 and EGFR Significantly Inhibits Growth of Anaplastic Thyroid Cancer in an Orthotopic Murine Model
    Article Snippet: .. The luciferase cDNA expression vector used in the transfection of 8505C was constructed by obtaining Luciferase cDNA from pGL3 vector by digesting with SMA I and XBA I restriction enzymes and ligating to ECOR V and NHE1 sites of pIRESneo3 vector (Clontech, Mountain View, CA). .. After confirming DNA sequence, a stable cell line was made by transfecting the luciferase-pIRESNneo3 plasmid into 8505C cells using lipofectamine 2000 (Invitrogen, Carlsbad, CA) and selected using 600μg/mL of G418 for 3 weeks.

    DNA Ligation:

    Article Title: Two-Step Regulation and Continuous Retrotransposition of the Rice LINE-Type Retrotransposon Karma
    Article Snippet: .. Two micrograms of genomic DNA extracted from leaves was digested with EcoRV and self-ligated using the DNA Ligation Kit Version 2 (Takara Bio, Otsu, Japan). .. Ligated DNA was subjected to PCR using the following primer pairs: 5′-CGCATTCTCACTAACCTCCATG-3′ and 5′-GATGTGATTGCCATGTTGGAG-3′ (full-length 5′ flanks); 5′-AGGAGATTGTCAGCGAGAAGTG-3′ and 5′-GATGTGATTGCCATGTTGGAG-3′ (5′ truncated 5′ flanks); and 5′-CGGACAGCATAGTGTTGTGTTG-3′ and 5′-GAATGTTGTTGTGGTTTGCAATG-3′ (3′ flanks).

    MTT Assay:

    Article Title: Effect of ZNRD1 gene antisense RNA on drug resistant gastric cancer cells
    Article Snippet: .. EcoR V, Xba I, BamH I, cloning vector pUCm-T and T4 DNA ligase were purchased from Takara; MTT, DEPC from Sigma. .. TRIZOL, M-MuLV RT enzyme, Taq DNA polymerase, DMEM, Lipofectamine and G418 were products of Gibco BRL, and Primer from Sangon, Shanghai.

    Construct:

    Article Title: Targeted Therapy of VEGFR2 and EGFR Significantly Inhibits Growth of Anaplastic Thyroid Cancer in an Orthotopic Murine Model
    Article Snippet: .. The luciferase cDNA expression vector used in the transfection of 8505C was constructed by obtaining Luciferase cDNA from pGL3 vector by digesting with SMA I and XBA I restriction enzymes and ligating to ECOR V and NHE1 sites of pIRESneo3 vector (Clontech, Mountain View, CA). .. After confirming DNA sequence, a stable cell line was made by transfecting the luciferase-pIRESNneo3 plasmid into 8505C cells using lipofectamine 2000 (Invitrogen, Carlsbad, CA) and selected using 600μg/mL of G418 for 3 weeks.

    Plasmid Preparation:

    Article Title: Effect of ZNRD1 gene antisense RNA on drug resistant gastric cancer cells
    Article Snippet: .. EcoR V, Xba I, BamH I, cloning vector pUCm-T and T4 DNA ligase were purchased from Takara; MTT, DEPC from Sigma. .. TRIZOL, M-MuLV RT enzyme, Taq DNA polymerase, DMEM, Lipofectamine and G418 were products of Gibco BRL, and Primer from Sangon, Shanghai.

    Article Title: Targeted Therapy of VEGFR2 and EGFR Significantly Inhibits Growth of Anaplastic Thyroid Cancer in an Orthotopic Murine Model
    Article Snippet: .. The luciferase cDNA expression vector used in the transfection of 8505C was constructed by obtaining Luciferase cDNA from pGL3 vector by digesting with SMA I and XBA I restriction enzymes and ligating to ECOR V and NHE1 sites of pIRESneo3 vector (Clontech, Mountain View, CA). .. After confirming DNA sequence, a stable cell line was made by transfecting the luciferase-pIRESNneo3 plasmid into 8505C cells using lipofectamine 2000 (Invitrogen, Carlsbad, CA) and selected using 600μg/mL of G418 for 3 weeks.

    Article Title: Carbohydrate Metabolism in Mutants of the Cyanobacterium Synechococcus elongatus PCC 7942 Defective in Glycogen Synthesis ▿
    Article Snippet: .. The recombinant plasmid was then linearized by digestion with EcoRV within the coding region and ligated with the chloramphenicol resistance gene ( cat ) derived from pHSG396 (Takara Bio Inc.). .. The resulting plasmid was designated p glgA :: cat .

    Expressing:

    Article Title: Targeted Therapy of VEGFR2 and EGFR Significantly Inhibits Growth of Anaplastic Thyroid Cancer in an Orthotopic Murine Model
    Article Snippet: .. The luciferase cDNA expression vector used in the transfection of 8505C was constructed by obtaining Luciferase cDNA from pGL3 vector by digesting with SMA I and XBA I restriction enzymes and ligating to ECOR V and NHE1 sites of pIRESneo3 vector (Clontech, Mountain View, CA). .. After confirming DNA sequence, a stable cell line was made by transfecting the luciferase-pIRESNneo3 plasmid into 8505C cells using lipofectamine 2000 (Invitrogen, Carlsbad, CA) and selected using 600μg/mL of G418 for 3 weeks.

    Recombinant:

    Article Title: Carbohydrate Metabolism in Mutants of the Cyanobacterium Synechococcus elongatus PCC 7942 Defective in Glycogen Synthesis ▿
    Article Snippet: .. The recombinant plasmid was then linearized by digestion with EcoRV within the coding region and ligated with the chloramphenicol resistance gene ( cat ) derived from pHSG396 (Takara Bio Inc.). .. The resulting plasmid was designated p glgA :: cat .

    Derivative Assay:

    Article Title: Carbohydrate Metabolism in Mutants of the Cyanobacterium Synechococcus elongatus PCC 7942 Defective in Glycogen Synthesis ▿
    Article Snippet: .. The recombinant plasmid was then linearized by digestion with EcoRV within the coding region and ligated with the chloramphenicol resistance gene ( cat ) derived from pHSG396 (Takara Bio Inc.). .. The resulting plasmid was designated p glgA :: cat .

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  • 99
    TaKaRa restriction endonuclease ecorv
    Schematic of the recombinant plasmid pCMV6-truncated-rVegfr2. Restriction digestion of the two <t>EcoRV</t> restriction sites in the plasmid pCMV6-rVegfr2, which encodes the extracellular reserved VEGFR2 Ig 1–3 and 5 regions. The recombinant plasmid pCMV6-truncated-rVegfr2 was reconstructed after self-ligation of the plasmid vector with <t>T4</t> DNA ligase. rVegfr2: rat-Vegf-receptor2.
    Restriction Endonuclease Ecorv, supplied by TaKaRa, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/restriction endonuclease ecorv/product/TaKaRa
    Average 99 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    restriction endonuclease ecorv - by Bioz Stars, 2020-08
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    94
    TaKaRa ecorv
    Conserved Domains in Karma . (A) Karma structure. Open boxes depict the two open reading frames of Karma (ORF1 and ORF2). ORF2 contains the endonuclease ( en ) and reverse transcriptase ( rt ) domains. Black boxes depict Cys-rich motifs. Vertical lines above the boxes depict the sites of HpaII and MspI cleavage, and vertical lines below the boxes depict the sites of <t>EcoRV</t> cleavage. Hatched boxes depict probes A (1317 bp) and B (1498 bp) used in <t>DNA</t> gel blot analysis. Bar = 1 kb. (B) Alignment of the conserved reverse transcriptase domain. Gray boxes indicate residues conserved in at least seven of the eight sequences depicted. I to VII denote the seven domains characteristic of reverse transcriptases. Retrotransposon sequences are from rice Karma , maize cin4 , lily del2 , Arabidopsis Ta11-1 , Cannabis LINE-CS, human LINE-1, frog Tx1 , and fruit fly R2Dm .
    Ecorv, supplied by TaKaRa, used in various techniques. Bioz Stars score: 94/100, based on 40 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/ecorv/product/TaKaRa
    Average 94 stars, based on 40 article reviews
    Price from $9.99 to $1999.99
    ecorv - by Bioz Stars, 2020-08
    94/100 stars
      Buy from Supplier

    80
    TaKaRa 398 bp stui ecorv fragment
    Constructs used in these studies Cartoons of the plasmids used in these studies are shown. Restriction endonuclease sites are abbreviated as follows: A, AflIII; Av, AvaI; B, BamHI; E, EcoRI; H, HindIII; K, KpnI; N, NcoI; S, SmaI; St, <t>StuI;</t> V, <t>EcoRV;</t> X, XbaI.
    398 Bp Stui Ecorv Fragment, supplied by TaKaRa, used in various techniques. Bioz Stars score: 80/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/398 bp stui ecorv fragment/product/TaKaRa
    Average 80 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    398 bp stui ecorv fragment - by Bioz Stars, 2020-08
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    Image Search Results


    Schematic of the recombinant plasmid pCMV6-truncated-rVegfr2. Restriction digestion of the two EcoRV restriction sites in the plasmid pCMV6-rVegfr2, which encodes the extracellular reserved VEGFR2 Ig 1–3 and 5 regions. The recombinant plasmid pCMV6-truncated-rVegfr2 was reconstructed after self-ligation of the plasmid vector with T4 DNA ligase. rVegfr2: rat-Vegf-receptor2.

    Journal: Cell & Bioscience

    Article Title: Expression and characterization of a soluble VEGF receptor 2 protein

    doi: 10.1186/2045-3701-4-14

    Figure Lengend Snippet: Schematic of the recombinant plasmid pCMV6-truncated-rVegfr2. Restriction digestion of the two EcoRV restriction sites in the plasmid pCMV6-rVegfr2, which encodes the extracellular reserved VEGFR2 Ig 1–3 and 5 regions. The recombinant plasmid pCMV6-truncated-rVegfr2 was reconstructed after self-ligation of the plasmid vector with T4 DNA ligase. rVegfr2: rat-Vegf-receptor2.

    Article Snippet: The restriction endonuclease EcoRV and T4 DNA Ligase were obtained from Takara China (TAKARA Biotechnology Co., LTD., Dalian, Shangdong China). pCMV6-rVegfr2 was constructed by ORIGENE (ORIGENE, China).

    Techniques: Recombinant, Plasmid Preparation, Ligation

    Conserved Domains in Karma . (A) Karma structure. Open boxes depict the two open reading frames of Karma (ORF1 and ORF2). ORF2 contains the endonuclease ( en ) and reverse transcriptase ( rt ) domains. Black boxes depict Cys-rich motifs. Vertical lines above the boxes depict the sites of HpaII and MspI cleavage, and vertical lines below the boxes depict the sites of EcoRV cleavage. Hatched boxes depict probes A (1317 bp) and B (1498 bp) used in DNA gel blot analysis. Bar = 1 kb. (B) Alignment of the conserved reverse transcriptase domain. Gray boxes indicate residues conserved in at least seven of the eight sequences depicted. I to VII denote the seven domains characteristic of reverse transcriptases. Retrotransposon sequences are from rice Karma , maize cin4 , lily del2 , Arabidopsis Ta11-1 , Cannabis LINE-CS, human LINE-1, frog Tx1 , and fruit fly R2Dm .

    Journal: The Plant Cell

    Article Title: Two-Step Regulation and Continuous Retrotransposition of the Rice LINE-Type Retrotransposon Karma

    doi: 10.1105/tpc.011809

    Figure Lengend Snippet: Conserved Domains in Karma . (A) Karma structure. Open boxes depict the two open reading frames of Karma (ORF1 and ORF2). ORF2 contains the endonuclease ( en ) and reverse transcriptase ( rt ) domains. Black boxes depict Cys-rich motifs. Vertical lines above the boxes depict the sites of HpaII and MspI cleavage, and vertical lines below the boxes depict the sites of EcoRV cleavage. Hatched boxes depict probes A (1317 bp) and B (1498 bp) used in DNA gel blot analysis. Bar = 1 kb. (B) Alignment of the conserved reverse transcriptase domain. Gray boxes indicate residues conserved in at least seven of the eight sequences depicted. I to VII denote the seven domains characteristic of reverse transcriptases. Retrotransposon sequences are from rice Karma , maize cin4 , lily del2 , Arabidopsis Ta11-1 , Cannabis LINE-CS, human LINE-1, frog Tx1 , and fruit fly R2Dm .

    Article Snippet: Two micrograms of genomic DNA extracted from leaves was digested with EcoRV and self-ligated using the DNA Ligation Kit Version 2 (Takara Bio, Otsu, Japan).

    Techniques: Western Blot

    Verification and optimization of hairpin (HP) cleavage-ligation. ( A ) Schematic illustration of dumbbell probe (DP) formation by cleavage-ligation of hairpin. ( B ) DP formation analyzed by PAGE. Only after cleavage, hairpin can be ligated into a band-shifted DP, which can be recleaved into hairpin. ( C ) All of the three kinds of cleaved ends produced by EcoRI, PstI and EcoRV are suitable to form DP efficiently. ( D ) Effects of stem length at the end side of the RE recognition sequence on DP formation. NsiI recognition sequence is underlined. ( E ) Effects of stem length at the loop side of the RE recognition sequence on DP formation. EcoRI recognition sequence is underlined.

    Journal: Scientific Reports

    Article Title: Production of dumbbell probe through hairpin cleavage-ligation and increasing RCA sensitivity and specificity by circle to circle amplification

    doi: 10.1038/srep29229

    Figure Lengend Snippet: Verification and optimization of hairpin (HP) cleavage-ligation. ( A ) Schematic illustration of dumbbell probe (DP) formation by cleavage-ligation of hairpin. ( B ) DP formation analyzed by PAGE. Only after cleavage, hairpin can be ligated into a band-shifted DP, which can be recleaved into hairpin. ( C ) All of the three kinds of cleaved ends produced by EcoRI, PstI and EcoRV are suitable to form DP efficiently. ( D ) Effects of stem length at the end side of the RE recognition sequence on DP formation. NsiI recognition sequence is underlined. ( E ) Effects of stem length at the loop side of the RE recognition sequence on DP formation. EcoRI recognition sequence is underlined.

    Article Snippet: T4 DNA Ligase and restriction endonucleases EcoRI, EcoRV and PstI were from TaKaRa Biotechnology Co. Ltd. (Dalian, China).

    Techniques: Ligation, Polyacrylamide Gel Electrophoresis, Produced, Sequencing

    Constructs used in these studies Cartoons of the plasmids used in these studies are shown. Restriction endonuclease sites are abbreviated as follows: A, AflIII; Av, AvaI; B, BamHI; E, EcoRI; H, HindIII; K, KpnI; N, NcoI; S, SmaI; St, StuI; V, EcoRV; X, XbaI.

    Journal: Experimental cell research

    Article Title: Sequence requirements for plasmid nuclear import

    doi: 10.1006/excr.1999.4716

    Figure Lengend Snippet: Constructs used in these studies Cartoons of the plasmids used in these studies are shown. Restriction endonuclease sites are abbreviated as follows: A, AflIII; Av, AvaI; B, BamHI; E, EcoRI; H, HindIII; K, KpnI; N, NcoI; S, SmaI; St, StuI; V, EcoRV; X, XbaI.

    Article Snippet: The SV40 origin and promoter region were removed from the plasmid pRc/RSV by digestion with EcoRV and religation creating pRSVneo. pRSVneo-SV40 was made by removing a 398 bp StuI-EcoRV fragment containing the SV40 origin/promoter from the TA cloning vector and then re-introducing the SV40 sequence into the AvaI site of pRSVneo. pGFPΔSV40 was derived from pEGFP-N1 (Clontech, Palo Alto, CA; referred to as pGFP in the text) by digestion with Stu I followed by partial digestion with Ssp I and ligation to remove the SV40 early promoter/enhancer region (nts 2218 to 2578).

    Techniques: Construct