Complementary to sequence homology. Medical search. Frequent questions

The pegRNA is a guide RNA that also encodes the RT template, which includes the desired edit and homology to the genomic DNA locus. (addgene.org)
Sequence complementary to the nicked genomic DNA strand serves as a primer binding site (PBS). (addgene.org)
Human genomic regions with exceptionally high levels of population differentiation identified from 911 whole-genome sequences. (mpg.de)
SHARCGS, a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing. (mpg.de)
Genomic and cDNA clones complementary to an abundant maternal mRNA were isolated and analyzed with regard to molecular structure, genomic location, transcript expression, and putative gene function. (marquette.edu)
Southern blot analysis indicated that this gene shared limited nucleotide similarity with several other Drosophila genomic sequences. (marquette.edu)
Additionally, five representative, cross hybridizing genomic clones were isolated based upon 3$\sp\prime$ nucleotide similarity with 21C cDNA sequences. (marquette.edu)
1984). These results suggest that the 3$\sp\prime$ sequences common to the genomic clones define a subset of Drosophila ribosomal proteins that share similar functional residues. (marquette.edu)
Digital PCR (dPCR) quantifies the absolute number of copies of a target genomic or complementary DNA (cDNA) sequence from a sample and can be used for a variety of applications [1-3] . (idtdna.com)
The Cas9 nuclease serves to unwind the genomic DNA duplex next to conserved protospacer adjacent motifs (PAMs) and homes in on its target sequence, which is recognized by a complementary single-guide RNA. (mbpinc.net)
This can result in replacement of the target genomic DNA sequence with the sequence from the donor vector containing desired mutation(s) or fragments to be knocked in. (vectorbuilder.kr)
Additionally, when designing donor vectors for HDR, it is critical to either exclude or inactivate any protospacer adjacent motif (PAM) sequences in the donor template, when present, to prevent Cas9 from disrupting the donor template or the edited genomic locus after HDR. (vectorbuilder.kr)
Our gene targeting donor vectors are designed to achieve highly efficient HDR-mediated insertion of reporters, fluorescent tags or other desired sequences at genomic target sites. (vectorbuilder.kr)
Delivering exogenous repair templates in the form of gene targeting donor vectors enables HDR-mediated introduction of precise sequence changes at the genomic target sites of interest. (vectorbuilder.kr)

The degree of homology between target and probe results in stable hybridization. (enzolifesciences.com)

In this article, we present an application of our novel E. coli CRISPR/Cas-mediated Lambda-Red (λ-Red) homologous recombination (HR) vector system, which facilitates gene editing through the homology-directed repair (HDR) of double-stranded DNA breaks (DSBs) created by Cas9 endonuclease, using either ssDNA or dsDNA as an editing template. (sigmaaldrich.com)
E. coli , one of the most commonly engineered bacteria, has an active homologous recombination (HR) system, so chromosomal integration can be achieved simply by donating DNAs with homology arms to recombine at a target site. (sigmaaldrich.com)
As serum-free monolayer culture of (swine) granulosa cells offers an in vitro model of hormonally responsive HMG-CoA reductase, we generated a (porcine) complementary DNA and homologous complementary RNA to investigate by sensitive and specific ribonuclease protection assay the hormonal regulation of HMG-CoA reductase gene expression in ovarian cells from immature Graafian follicles. (elsevierpure.com)
For genotyping applications, dPCR can capture rare allele or copy number variation, be used for liquid biopsy analysis, identify homology directed repair (HDR) or non-homologous end joining (NHEJ) induced by CRISPR-based genome editing, and assess DNA quality for next generation sequencing (NGS). (idtdna.com)
In this genome-editing system, the Cas9 enzyme forms a complex with a guide RNA (gRNA), which provides targeting specificity through direct interaction with homologous 18-22 nt target sequences in the genome. (vectorbuilder.kr)
The donor vector is designed with the desired insertion sequence flanked by target site specific upstream and downstream homologous sequences to facilitate efficient recombination following CRISPR-generated DSBs. (vectorbuilder.kr)
The majority of DSBs in a cell are repaired by non-homologous end-joining (NHEJ), which ligates blunt ends in a sequence-independent manner and can result in small insertions or deletions (indels) [ 1 ] . (encyclopedia.pub)
In SSA, long-range resection proceeds bi-directionally from the DSB until homologous sequences are revealed. (encyclopedia.pub)
This stable silencing requires components of the small RNA pathway and can silence homologous sequences in trans . (nature.com)

DNA sequences that form the coding region for the viral envelope (env) proteins in retroviruses. (lookformedical.com)
The TAF homology (TAFH) or Nervy homology region 1 (NHR1) domain is a domain of 95-100 amino acids present in eukaryotic proteins of the MTG/ETO family and whereof the core ~75-80 residues occur in TAF proteins. (embl-heidelberg.de)
We have determined the sequences of the arabinose-H+ and xylose-H+ membrane transport proteins of Escherichia coli. (ox.ac.uk)
There is little apparent homology with the lactose-H+ (LacY) or melibiose-Na+ (MelB) transport proteins of E. coli. (ox.ac.uk)
Using complementary approaches, i.e. controlled enzymatic hydrolysis and production of recombinant fusion proteins, we demonstrated that, for these patients, the allergenicity of the caprine β-casein could be abolished by substituting five amino acids residues. (cea.fr)
They contain a 'RGD' sequence, identical to the recognition site of many adhesion proteins. (embl.de)

Random priming is a type of primer extension in which a mixture of small oligonucleotide sequences, acting as primers, anneal to a heat-denatured double-stranded template. (enzolifesciences.com)
We verified this excision event using primers (not shown) to amplify the 3' arm and sequencing through the remaining FRT site. (cdc.gov)
As with qPCR, the primers anneal to the outer regions of the target sequence (typically 60-150 bp in length). (idtdna.com)

We report a complementary DNA sequence in the green alga Chlamydomonas reinhardtii that encodes a microbial opsin-related protein, which we term Channelopsin-1. (scienceopen.com)
The hydrophobic core region of the protein shows homology to the light-activated proton pump bacteriorhodopsin. (scienceopen.com)
The env genes contain a cis-acting RNA target sequence for the rev protein (= GENE PRODUCTS, REV ), termed the rev-responsive element (RRE). (lookformedical.com)
The rat G-protein-coupled receptor kinase 6 (GRK6) cDNA was cloned from rat brain tissue by a combination of reverse-transcription polymerase chain reactions (RT-PCR), based on homology to the cloned human GRK6, and rapid amplification of cDNA ends (RACE-PCR). (nih.gov)
In one embodiment, the present invention relates to a recombinant protein having a protein comprising at least a portion of the amino acid sequence set forth in SEQ ID NO:2. (justia.com)
In some embodiments, the present invention provides a protein which consists of the amino acid sequence shown in SEQ ID NO: 2 having a deletion, substitution, or addition of at least one amino acid and which has neurogenesis inducing activity. (justia.com)
The present invention also relates to a gene which hybridizes with the neurogenesis inducing gene encoding for a protein comprising at least a portion of the amino acid sequence set forth in SEQ ID NO:2. (justia.com)
In another embodiment, the present invention relates to an isolated nucleic acid encoding a protein having at least a portion of the amino acid sequence selected from the group consisting of SEQ ID NO: 2, SEQ ID NO: 42 and in SEQ ID NO: 44. (justia.com)
Computer analysis of the DNA sequence of the 21C cDNA revealed a 76 percent 3$\sp\prime$ coding sequence similarity with the Drosophila acidic ribosomal protein gene, A1 (Qian et al. (marquette.edu)
saCas9 Nuclease NLS contains a SV40 T antigen nuclear localization sequence (NLS) on the C-terminus of the protein. (mbpinc.net)
Taxonomy and function of C1 protein kinase C homology domains. (embl-heidelberg.de)
The deduced amino acid sequence of LYVE-1 predicts a 322-residue type I integral membrane polypeptide 41% similar to the CD44 HA receptor with a 212-residue extracellular domain containing a single Link module the prototypic HA binding domain of the Link protein superfamily. (ox.ac.uk)
L-RNA (8,917 nucleotides) contained a single open reading frame (ORF) in the viral complementary (vc) strand and encoded a 330-kDa protein. (esciencepress.net)
and another in the viral complementary sense, encoding the viral nucleocapsid protein of 28.8-kDa Mr. Amino acid sequences of TSWV-KP of S-RNA NSs and N exhibited 35.9-87.9% and 19.9-98.4% identity, respectively. (esciencepress.net)

Gene probes are used in various blotting and in situ hybridization (ISH) techniques for the detection of nucleic acid sequences in food industry, environmental, medical, and veterinary applications to improve the specificity of the analyses. (enzolifesciences.com)
Hybridization can take place between two complimentary DNA sequences, between a single-stranded DNA and a complementary RNA, or between two RNA sequences. (bvsalud.org)

In addition, complementary DNAs for nine style S -glycoproteins have been sequenced 7-10 and have homology with two fungal ribonucleases. (nature.com)
Widely used technique which exploits the ability of complementary sequences in single-stranded DNAs or RNAs to pair with each other to form a double helix. (bvsalud.org)

Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories. (lookformedical.com)

Their amino-acid sequences can, however, be determined by cloning and sequencing the corresponding gene (or complementary DNA). (ox.ac.uk)

Many genomes contain rapidly evolving and highly divergent genes whose homology to genes of known function often cannot be determined from sequence similarity alone. (janelia.org)
However, coding sequence-independent features of genes, such as intron-exon boundaries, often evolve more slowly than coding sequences and can provide complementary evidence for homology. (janelia.org)
We found that a linear logistic regression classifier using only structural features of rapidly evolving bicycle aphid effector genes identified many putative bicycle homologs in aphids, phylloxerids, and scale insects, whereas sequence similarity search methods yielded few homologs in most aphids and no homologs in phylloxerids and scale insects. (janelia.org)
To find out which DNA repair enzymes are critical to homology-directed repair after CRISPR cutting, Richardson and Corn employed a technique called CRISPR interference (CRISPRi) to knock out, one at a time, more than 2,000 genes known or suspected to be involved in DNA repair, a function critical to a healthy cell. (sciencedaily.com)
Surprisingly, many of the genes that proved to be important -- homology-directed repair dropped dramatically when they were silenced -- were involved in an important repair system not thought to be involved in CRISPR repair. (sciencedaily.com)
We have sequenced the remainder of the nopaline-specific T-DNA (containing genes a to d) and acs to iaaM. (cnrs.fr)
The BTB and CNC homology 1 (BACH1) target genes are involved in the oxidative stress response and in control of the cell cycle. (mpg.de)
The aim of this study was to identify and compare regions of nucleotide sequence homology between similar genes that are abundantly expressed and maternally transmitted during Drosophila oogenesis. (marquette.edu)
To identify such genes, a Drosophila egg chamber cDNA library was differentially screened such that maternal RNA sequences were readily identified and selected from the recombinant population. (marquette.edu)
The complete nucleotide sequence of TSWV-KP medium-sized (M) RNA comprised 4,768 nucleotides and indicated a typical tospovirus with two genes in ambisense arrangement. (esciencepress.net)

Complete nucleotide sequences of the large (L) genome segments of TSWV-KP were determined. (esciencepress.net)

Alternatively, other enzymes can patch the break with a single strand of DNA that matches the DNA sequence upstream and downstream of the cut. (sciencedaily.com)
The donor vector contains the desired insertion sequence flanked by upstream and downstream homology arms. (vectorbuilder.kr)

the invention also provides non-human animals and cells comprising a transgene encoding an APP comprising the Swedish mutation and further comprising functionally disrupted endogenous APP gene loci, transgenes and targeting constructs used to produce such transgenic cells and animals, transgenes encoding human Swedish mutation APP polypeptide sequences, and methods for using the transgenic animals in pharmaceutical screening and as commercial research animals for modeling neurodegenerative diseases (e.g. (justia.com)
The matk cDNA clone encodes a polypeptide of 527 amino acids and has closest sequence similarity to the csk tyrosine kinase. (ox.ac.uk)

amyloid peptide sequence (Esch et al. (justia.com)
Peptides were characterized by a combined use of MALDI- TOF/TOF and nanoESI-IT-ETD experiments to determine not only the peptide sequence but also the composition and the position of the carbohydrate moiety. (springer.com)

cdb4 was created by successive homology-directed repair of the disrupted mir-35 locus with a protospacer to preserve the secondary structure of the primary and precursor hairpin. (umn.edu)

The tag allows any DNA fragments containing complementary sequences with the DNA probe sequence to be visualized within the Southern blot. (cloudfront.net)
[7] After the DNA fragments are immobilized on the membrane, prehybridization methods are used to reduce non-specific probe binding then the fragments on the membrane are hybridized with either radiolabeled or nonradioactive labeled DNA, RNA, or oligonucleotide probes that are complementary to the target DNA sequence then detection methods are used to visualize the target DNA. (cloudfront.net)
In Caenorhabditis elegans , RNA-dependent RNA polymerases (RdRPs) are used for the small RNA-guided production of additional small RNAs 8 that are complementary to terminally modified mRNA fragments 9 . (nature.com)

Furthermore, the identification of viral sequences largely depends on similarity searches against reference databases. (cnrs.fr)

Large-scale sequencing of small and long RNAs has previously been used to detect viruses, but without any formal comparison of different strategies. (cnrs.fr)
Here, we developed a sequence-independent strategy based on virus-derived small RNAs produced by the host response, such as the RNA interference pathway. (cnrs.fr)
In insects, we compared sequences of small and long RNAs, demonstrating that viral sequences are enriched in the small RNA fraction. (cnrs.fr)

The third difference is the very high proportion of proline residues in the sequence accounting for about one-third of the sequence. (springer.com)
Comparisons of their sequences and hydropathic profiles yield insights into their structure, functionally important residues and possible evolutionary relationships. (ox.ac.uk)

Comparison of the three predicted human MTG8-related polypeptides to their Drosophila counterpart (nervy) highlights four separate regions of sequence conservation that may correspond to distinct domains. (embl-heidelberg.de)

CRISPR-Cas9 is revolutionary because of the precision with which it homes in on a specific DNA sequence out of billions in the genome and cleaves the double-stranded DNA molecule. (sciencedaily.com)
3 Selection markers can be integrated into double-stranded DNA (dsDNA) donors, but excision of these markers requires a second step and creates scar sequences 4 that can trigger unwanted recombination events. (sigmaaldrich.com)
Recovery is also observed in most cases when double-stranded RNA is used to silence the same coding sequence in different regulatory contexts that drive germline expression. (nature.com)

The analysis of next-generation sequencing data revealed four viral groups with seven species, of which up to five were simultaneously detected in a single trypanosomatid isolate. (biomedcentral.com)
We also noted that the small RNA size profile is a unique signature for each virus and can be used to identify novel viral sequences without known relatives in reference databases. (cnrs.fr)

2002. Genetic organization of Iris yellow spot virus M RNA: indications for functional homology between the Gc. (esciencepress.net)
Unlike such genetic changes, epigenetic changes, which do not alter genome sequence, can result in three possible outcomes: passive dilution, active repair through negative feedback, or active maintenance through positive feedback. (nature.com)

And it could help researchers boost the efficiency with which cells insert new DNA into the genome -- to replace a harmful mutation with the correct DNA sequence, for example -- and generally tweak CRISPR-Cas9 editing to get the desired outcome. (sciencedaily.com)
Genome-wide massively parallel sequencing of formaldehyde fixed-paraffin embedded (FFPE) tumor tissues for copy-number- and mutation-analysis. (mpg.de)
cdb2 cdb78 is a mutation to the 3' end of the mature mir-35 creating a mutant with mir-35 seed sequence and mir-82 3 end. (umn.edu)
Alternatively, by supplying a suitable repair template, virtually any desired point mutation can be introduced at the break point via homology-directed repair (HDR). (mbpinc.net)

Multiple sequence alignment of the M-RNA showed highest homologies to TSWV-BR01. (esciencepress.net)

Cas9 screens the genome and cleaves within sequences complementary to the gRNA, provided they are immediately followed by the protospacer adjacent motif (PAM) NGG. (vectorbuilder.kr)
DSBs can be repaired by homology-directed repair (HDR) using exogenous donor DNA template, which is co-introduced into cells with the CRISPR/Cas9 components. (vectorbuilder.kr)

Disintegrins contain an RGD (Arg-Gly-Asp) or KGD (Lys-Gly-Asp) sequence motif that binds specifically to integrin IIb-IIIa receptors on the platelet surface, thereby blocking the binding of fibrinogen to the receptor-glycoprotein complex of activated platelets. (embl.de)

Rare mutations in genome sequence that result from failed DNA repair are transmitted across generations through DNA replication during each cell division. (nature.com)

The transgene consists of an EF1a promoter 5' to an inverted taCasp3-T2A-TEVp sequence that is flanked by heterotypic loxP (open triangles) and lox2722 (closed triangles) sites. (cdc.gov)
Within the homology arm-bracketed region, a loxP site-flanked fluorescent marker (DsRed) is present. (vectorbuilder.kr)

Nucleic acid probes are either a single stranded DNA or RNA with a strong affinity towards a specific DNA or RNA target sequence. (enzolifesciences.com)
In theory, any nucleic acid can be used as a probe provided it can be labeled to permit detection and quantitation of the hybrid molecules formed between the probe and sequence to be identified. (enzolifesciences.com)
In one embodiment, the nucleic acid comprises a nucleotide sequence having at least a portion of the sequence selected from the group consisting of SEQ ID NO: 1, SEQ ID NO: 41, and SEQ ID NO: 43. (justia.com)

In developing a probe, a sequence of nucleotides must be identified, isolated, reproduced in sufficient quantity, and tagged with a label that can be detected. (enzolifesciences.com)
A DNA probe is a labeled fragment of DNA that contains a nucleotide sequence specific for the gene or chromosomal region of interest. (enzolifesciences.com)

Despite sequence identities ranging from 87% to 91% between caprine and bovine caseins, these patients possess IgE antibodies that bind specifically to the caprine caseins without recognizing the bovine ones. (cea.fr)

Sequence and functional analysis of the left-hand part of the Ŧ-region from the nopaline-type Ti plasmid, pTiC58. (cnrs.fr)
Transcriptome analysis by strand-specific sequencing of complementary DNA. (mpg.de)
By combining analysis of 54 C1 domain sequences with information from previously reported solution and crystal structure determinations and site-directed mutagenesis, profiles are derived and used to classify C1 domains. (embl-heidelberg.de)

The break is then repaired by the annealing of these complementary sequences, resulting in deletion of the intervening sequence [ 3 ] [ 9 ] . (encyclopedia.pub)

Sequence comparisons also indicate that matk contains src homology region 2 and 3 domains but lacks the NH2-terminal myristylation signal, the negative regulatory tyrosine (Tyr-527), and the autophosphorylation site (Tyr-416) corresponding to those found in src. (ox.ac.uk)

We used this information to develop the BrassicaEDB, including eFP, Treatment, Coexpression, and SRA Project modules based on gene expression profiles and Gene Feature, qPCR Primer, and BLAST modules based on gene sequences. (preprints.org)
Primer sequences listed in Table S3. (cdc.gov)

Being able to manipulate those cells to increase the frequency of this process, called homology-directed repair, is exciting. (sciencedaily.com)
A complementary DNA strand is created to complete the double-strand repair. (sciencedaily.com)
The latter, homology-directed repair, happens more frequently in some types of cells than others, and requires the presence of a piece of DNA that can be used to patch the break. (sciencedaily.com)

Cancer genome sequencing reveals diverse acquired mutations in CTCF , which we have shown, functions as a tumour suppressor gene. (preprints.org)
egl-1(cdb97) contains engineered mutations in mir-35 binding site in the 3 UTR region making the sequence complementary to the mir-35(cdb4) variant. (umn.edu)
This technique allows targeted base changes, such as point mutations, or large sequence alterations such as fragment knockin. (vectorbuilder.kr)

In an HR-deficient context, DSBs that cannot be repaired by NHEJ must be channeled through error-prone homology-mediated pathways such as single-strand annealing (SSA) and alternative end-joining (Alt-EJ). (encyclopedia.pub)

In order to initiate HR, the DSB is resected, leaving a segment of single-stranded DNA (ssDNA) that is coated first by RPA, then by RAD51 in order to facilitate homology search and invasion of the sister chromatid-a process known as strand exchange. (encyclopedia.pub)

Southern blot is a method used for detection and quantification of a specific DNA sequence in DNA samples. (cloudfront.net)
INTERPRETATION: This investigation substantiates the use of metagenomic next-generation sequencing for the broad-based detection of rare or unexpected pathogens. (cdc.gov)

DNA sequences that form the coding region for retroviral enzymes including reverse transcriptase, protease, and endonuclease/integrase. (lookformedical.com)
Using reverse transcriptase-polymerase chain reaction, we cloned and sequenced a 238-base pair complementary DNA from porcine luteal tissue that encodes the catalytic region of HMG-CoA reductase. (elsevierpure.com)
Also known as nervy homology region 1 (NHR1). (embl-heidelberg.de)

This affinity and complementary sequence allow binding to specific regions of a target sequence of nucleotides. (enzolifesciences.com)

Multiple MTG8-related sequences are found in several vertebrate species, from fish to mammals, albeit not in a urodele. (embl-heidelberg.de)

This PBS sequence hybridizes to the target site and serves as the point of initiation for reverse transcription. (addgene.org)
Each of these sequences are designed to have sequence complementarity to the target gene/DNA of interest. (idtdna.com)

The technique is used to detect and isolate specific sequences, measure homology, or define other characteristics of one or both strands. (bvsalud.org)

A strand-specific library preparation protocol for RNA sequencing. (mpg.de)
Southern invented Southern blot after combining three innovations, the first one is the restriction endonucleases which were developed at Johns Hopkins University by Tom Kelly and Hamilton Smith , those restriction endonucleases are used to cut the DNA at a specific sequence. (cloudfront.net)

We conducted RNA sequencing (RNA-Seq) of 103 tissues from rapeseed cultivar ZhongShuang11 (ZS11) at seven developmental stages (seed germination, seedling, bolting, initial flowering, full-bloom, podding, and maturation). (preprints.org)
We tested various specimens (blood, cerebrospinal fluid, intraocular fluid, serum, and tissues) from the organ donor and recipients by serology, RT-PCR, immunohistochemistry, metagenomic next-generation sequencing, and host gene expression, and conducted a traceback of blood transfusions received by the organ donor. (cdc.gov)

Finally, these new peptides reveal a carbohydrate moiety, indicating a glycosylation in the sequence. (springer.com)

Taking into account the clinical picture - transient attacks of hyperkinesis, their connection with movement, as well as data from video-electroencephalographic monitoring, a diagnosis of paroxysmal kinesiogenic dyskinesia was established, which in a further diagnostic search was confirmed by targeted sequencing of the pathological variant of the PRRT2 gene previously described in patients with kinesiogenic dyskinesia. (bvsalud.org)

Exome sequencing from nanogram amounts of starting DNA: comparing three approaches. (mpg.de)

Through this new partnership we are pleased to offer you comprehensive next generation sequencing solutions. (idtdna.com)
Integrated DNA Technologies acquires Archer™ next generation sequencing research assays to advance actionable scientific discoveries. (idtdna.com)
FINDINGS: We identified one read from yellow fever virus in cerebrospinal fluid from the recipient of a kidney using metagenomic next-generation sequencing. (cdc.gov)

Anatomy11

Organisms31

Chemicals and Drugs85

Analytical, Diagnostic and Therapeutic Techniques and Equipment37

Phenomena and Processes91

Disciplines and Occupations1

Technology, Industry, Agriculture2

Information Science6

Health Care2

Genomic14

Degree of homology1

Homologous9

Proteins6

Primers3

Protein14

Hybridization2

DNAs2

Molecular1

Cloning1

Genes10

Nucleotide sequences1

Upstream and downstream2

Polypeptide2

Peptide sequence2

Locus1

Fragments3

Similarity1

RNAs3

Residues2

Drosophila1

Double-stranded3

Viral2

Genetic2

Mutation4

Alignment1

Cas92

Motif1

Genome Sequence1

LoxP2

Nucleic3

Probe2

Bovine1

Analysis3

Deletion1

Tyrosine1

Primer2

Repair3

Mutations3

NHEJ1

Facilitate1

Detection2

Region3

Nucleotides1

Species1

Target2

Define1

Specific2

Tissues2

Carbohydrate1

Search1

Approaches1

Next-generation3