AnatomyOrganismsDiseasesChemicals and DrugsAnalytical, Diagnostic and Therapeutic Techniques and EquipmentPhenomena and ProcessesInformation Science
Terminal Repeat SequencesRepetitive Sequences, Nucleic AcidHIV Long Terminal RepeatBase SequenceMolecular Sequence DataDNA, ViralGenes, ViralCloning, MolecularRetroviridaeMoloney murine leukemia virusDNA Restriction EnzymesLeukemia Virus, MurineProvirusesPlasmidsDependovirusTandem Repeat SequencesTrinucleotide RepeatsCell LineTranscription, GeneticRecombination, GeneticDNA Transposable ElementsLeukemia, ExperimentalSequence Homology, Nucleic AcidInverted Repeat SequencesPromoter Regions, GeneticGenome, ViralGenetic VectorsRNA-Directed DNA PolymeraseTransfectionRetroelementsRNA, ViralAmino Acid SequenceVirus ReplicationNucleic Acid HybridizationGenesViral ProteinsGene Expression Regulation, ViralMammary Tumor Virus, MouseTrinucleotide Repeat ExpansionDNARepetitive Sequences, Amino AcidRestriction MappingEndogenous RetrovirusesDinucleotide RepeatsHIV-1Gene Products, tatEnhancer Elements, GeneticDNA-Binding ProteinsVirus Integrationtat Gene Products, Human Immunodeficiency VirusSequence Analysis, DNAMutationChloramphenicol O-AcetyltransferaseGenes, Intracisternal A-ParticleNucleic Acid ConformationMicrosatellite RepeatsBinding SitesPolymerase Chain ReactionOpen Reading FramesBlotting, SouthernDNA, RecombinantMinisatellite RepeatsPresynaptic TerminalsTelomereSequence DeletionHeLa CellsTranscription FactorsChromosome MappingRegulatory Sequences, Nucleic AcidTranscriptional ActivationDNA PrimersDNA, SatellitePhylogenySequence AlignmentAvian Sarcoma VirusesRNA, MessengerSequence Homology, Amino AcidNuclear ProteinsAnkyrin RepeatProtein BindingSingle-Strand Specific DNA and RNA EndonucleasesChromosome DeletionEscherichia coliHIV EnhancerGene Expression RegulationMyotonic DystrophyMink Cell Focus-Inducing VirusesSpumavirusOligodeoxyribonucleotidesEvolution, MolecularDNA ReplicationGenes, tatSpecies SpecificityDNA, CircularOligonucleotide ProbesDNA, BacterialGenetic VariationGenes, RegulatorCells, CulturedHuman T-lymphotropic virus 1
LTRsGenomePutativeGenomic SequenceProteinNucleic acidPrimersGenesViralTransposable elementsIsolatesPlasmidMutationsBindsGenomesAmino acid seqExtracellularMammalianGeneEndogenous retrovirusProteinsConsensus sequenceFoldMRNALongSegmentMethodsDomainMildFamilyHostRegionDataInternalStudyLeadsPreviousDistinctCaseSevereDetailsText
LTRs4
  • It has also been demonstrated that STAT1 (Signal Transducer And Activator Of Transcription 1), a transcription factor (TF) crucially involved in the IFNγ pathway, binds consensus sequences that, in humans, are located with a high frequency in the LTRs (Long Terminal Repeats) of the MER41 family of primate-specific HERVs (Human Endogenous Retrovirus). (biorxiv.org)
  • Of note, functionally-relevant differences between humans and chimpanzees are observed regarding the 3 main components of this pathway: i) the protein sequences of immunes TFs binding MER41 LTRs, ii) the insertion sites of MER41 LTRs in the promoter regions of ID-associated genes and iii) the protein sequences of the targeted ID-associated genes. (biorxiv.org)
  • Two forms of circular DNA are generally found: one having a single Long Terminal Repeat (LTR) and one having two LTRs. (ukessays.com)
  • Despite the retroviruses' matching sequences, the flanking long terminal repeats (LTRs) are dissimilar with regard to most of their functions. (caister.com)
Genome10
  • In the process of cloning the entire Md11 genome in a bacterial artificial chromosome (BAC) vector, we obtained an infectious clone in which the entire terminal repeat short segment (TRS) was replaced by a portion of the duck genome. (usda.gov)
  • This finding provides direct evidence that host genome acquisition by MDV actually occurs during virus replication, and that one or more such MDV genomes with host sequences may exist within MDV viral stocks, which tend to be polyclonal due to the strictly cell-associated nature of its infection process. (usda.gov)
  • Human endogenous retroviruses (HERVs) are a family of endogenous retroviruses that comprise the ~8.93% of the human genome sequence, with a high proportion being human specific. (mdpi.com)
  • Transcription proceeds through the genome and mRNA is polyadenylated and processed using signals in transcribed regions from the 3′ LTR at the end of the transcribed R (repeat). (ukessays.com)
  • In this study, the Illumina HiSeq 4000 and PacBio platforms were used to sequence and assemble the whole genome of Fusarium equiseti D25-1. (researchsquare.com)
  • The total repetitive sequence length was 1,713,918 bp, accounting for 4.2033% of the genome. (researchsquare.com)
  • Advances in whole-genome sequencing technologies have enabled numerous key discoveries. (researchsquare.com)
  • Contains the transgene sequence encoding your insert of interest, which is flanked by long terminal repeat (LTR) sequences that enable integration of the transfer plasmid sequences into the host genome. (cnic.es)
  • A genome sequence of 189,344 bp encoding 166 open reading frames (ORFs) was obtained. (cdc.gov)
  • Nearly Complete Genome Sequences of Type 2 Sabin-Like Polioviruses from Northern Nigerian Poliovirus Surveillance, 2016 to 2018. (cdc.gov)
Putative2
  • Some repeats contain putative calcium-binding sites. (embl.de)
  • Predikin now consists of two components: (i) PredikinDB, a database of phosphorylation sites that links substrates to kinase sequences and (ii) a Perl module, which provides methods to classify protein kinases, reliably identify substrate-determining residues, generate scoring matrices and score putative phosphorylation sites in query sequences. (biomedcentral.com)
Genomic Sequence1
  • In this study, the complete genomic sequence of Fusarium equiseti D25-1 was determined using multiple sequencing platforms. (researchsquare.com)
Protein8
  • The vector itself is like the carrier pigeon for the protein-coding genetic sequence," he said. (aao.org)
  • The latter are "sequences that allow the genetic material to hijack the cellular machinery of the target cell that's being transduced to make the protein of choice," Dr. Kiss said. (aao.org)
  • (A) BRCA2 protein schematic depicting domain organization: N-terminus, BRC repeats DNA binding domain (DBD), and C-terminal domain (CTD). (frontiersin.org)
  • The acquired sequence is not predicted to express any protein even though it contains one exon of the VAMP1 gene. (usda.gov)
  • We report biochemical, crystallographic, and mutational studies of domain repeats 1-3 of invertebrate egg coat protein VERL and their interaction with cognate sperm protein lysin. (rcsb.org)
  • The NUP98/KDM5A fusion protein contains the Phe-Gly (FG) repeats of the N-terminal part of NUP98. (atlasgeneticsoncology.org)
  • Genotyping of ASFV isolates by partial sequencing of the B646L gene that encodes the major capsid protein p72 has identified 22 genotypes ( 6 ). (cdc.gov)
  • Specifically, the reaction products with the N-terminal valine of the hemoglobin protein chains (N-[2-carbamoylethyl]valine and N-[2-hydroxycarbamoyl-ethyl]valine for acrylamide and glycidamide adducts, respectively) are measured. (cdc.gov)
Nucleic acid4
  • A particle according to claim 1, further comprising the nucleic acid sequence encoding die protease cleavage signal. (sumobrain.com)
  • The present invention relates to the use of one or more type 7 long terminal repeat (LTR7) nucleic acid sequences of type H human endogenous retroviruses (HERVH) ("LTR7/HERVH nucleic acid sequences") for identifying primate naive pluripotent stem cells. (bath.ac.uk)
  • The invention is directed to the use of LTR7/HERVH nucleic acid sequences as a marker, wherein LTR7/HERVH-associated transcription is used as a marker for primate naive pluripotent stem cells. (bath.ac.uk)
  • The invention also relates to a reporter construct comprising LTR7/HERVH nucleic acid sequences in addition to the use of said reporter, in particular for optimizing culture conditions for naïve primate pluripotent stem cells. (bath.ac.uk)
Primers1
  • We designed custom adapters (Table S5) so that the standard Illumina sequencing primers would not interfere with our library. (nih.gov)
Genes6
  • Here, we present evidence that the promoter regions of intellectual disability-associated genes are uniquely enriched in LTR sequences of the MER41 HERVs. (biorxiv.org)
  • have analyzed the tef-1α sequences of F. equiseti , as well as the toxin-related genes PKS13 , PKS4, and TRI5 [26], and Kari has successfully cloned a protease gene [27]. (researchsquare.com)
  • Therefore comparative genomic analysis of T . equi was undertaken to: 1) identify genes contributing to immune evasion and persistence in equid hosts, 2) identify genes involved in PBMC infection biology and 3) define the phylogenetic position of T . equi relative to sequenced apicomplexan parasites. (biomedcentral.com)
  • Comparative genomic analysis of T . equi revealed the phylogenetic positioning relative to seven apicomplexan parasites using deduced amino acid sequences from 150 genes placed it as a sister taxon to Theileria spp . (biomedcentral.com)
  • Previous data for sequencing of 3 genes indicated that the Georgia 2007/1 isolate is closely related to isolates of genotype II, which has been identified in Mozambique, Madagascar, and Zambia. (cdc.gov)
  • The Georgia 2007/1 isolate was grouped within genotype II by partial sequencing of the B646L and B602L genes and complete sequencing of the CP204L gene. (cdc.gov)
Viral2
  • They use an integrase that acts in a site-specific manner to join the ends of the viral cDNA to target sequences in host cell DNA. (ukessays.com)
  • In spite of their broad abundance, viruses, in particular bacteriophages, remain largely unknown since only about 20% of sequences obtained from viral community DNA surveys could be annotated by comparison with public databases. (mdpi.com)
Transposable elements1
  • Interspersed repeats and other mementos of transposable elements in mammalian genomes. (nih.gov)
Isolates3
  • We report the complete genomic coding sequence of the Georgia 2007/1 isolate and comparison with other isolates. (cdc.gov)
  • 90,000 animals died or were destroyed (www.oie.int). Experimental infections of pigs confirmed that isolates obtained after introduction of ASF into Armenia and the Russian Federation cause acute disease and result in high mortality rates (www.efsa.europa.eu/en/scdocs/scdoc/1556.htm). (cdc.gov)
  • We sequenced 109 type 2 Sabin-like poliovirus isolates that had been collected from acute flaccid paralysis patients or healthy children in Nigeria. (cdc.gov)
Plasmid2
  • Plasmid sequence and annotations. (addgene.org)
  • Use text editor or plasmid mapping software to view sequence. (addgene.org)
Mutations2
  • Background De novo mutations are emerging as an important cause of neurocognitive impairment, and whole exome sequencing of case-parent trios is a powerful way of detecting them. (bmj.com)
  • Cancer is a complex genetic disease caused by abnormal alteration (mutations) in DNA sequences that leads to dyregulation of normal cellular processes thereby driving tumor growth. (intechopen.com)
Binds2
  • Whereas sequence-divergent repeat 1 does not bind lysin, repeat 3 binds it non-species specifically via a high-affinity, largely hydrophobic interface. (rcsb.org)
  • The heptapeptide sequence from -3 to +3 that best binds to the pocket is determined by the physicochemical nature of the residues in the catalytic domain that line the pocket and contact the substrate. (biomedcentral.com)
Genomes1
  • In order to better understand the genomic forces driving the evolution of Echinochloa species toward weed and crop characteristics, we assemble genomes of three Echinochloa species (allohexaploid E. crus-galli and E. colona , and allotetraploid E. oryzicola ) and re-sequence 737 accessions of barnyard grasses and millets from 16 rice-producing countries. (nature.com)
Amino acid seq1
  • Quantitation of the acrylamide and glycidamide hemoglobin adduct is performed using octapeptides with the same amino acid sequence as the N-terminal of the beta-chain of hemoglobin and with acrylamide and glycidamide attached at the valine (AA-VHLTPEEK, GA-VHLTPEEK) and the corresponding stable isotope labeled AA-Val(13C5 15N)-HLTPEEK and GA-Val(13C5 15N)-HLTPEEK as internal standards. (cdc.gov)
Extracellular1
  • They have cysteine-rich repeats of about 40 amino acids in the extracellular amino terminal. (copewithcytokines.org)
Mammalian1
  • VERL repeats fold like the functionally essential N-terminal repeat of mammalian sperm receptor ZP2, whose structure is also described here. (rcsb.org)
Gene1
  • In the current report, a systematic approach is implemented to catalogue regulatory elements within HERVs, as a roadmap to potential functions of HERV sequences in gene networks. (mdpi.com)
Endogenous retrovirus1
Proteins1
  • Herein, for the first time, we present a platform based on droplet microfluidics coupling with the recombinase aided amplification (RAA)-assisted one-pot clustered regularly interspaced short palindromic repeats together with CRISPR-associated proteins 13a (CRISPR/Cas13a) assay, and droplet encoding strategy for accurate and sensitive determination of nucleic acids from various foodborne pathogens. (bvsalud.org)
Consensus sequence2
Fold3
  • Alpha integrins are proposed to contain a domain containing a 7-fold repeat that adopts a beta-propellor fold. (embl.de)
  • The 7-fold repeat domain is homologous to a similar domain in phosphatidylinositol-glycan-specific phospholipase D. (embl.de)
  • The N-terminal region has been predicted to fold into a beta-propeller domain composed of seven beta-sheets each about 60 amino acid residues long, with the I-domain inserted between beta-sheets 2 and 3. (embl.de)
MRNA1
  • Full-length genomic mRNA is made starting at the beginning of the repeat at the 5′ LTR (Long Terminal Repeat). (ukessays.com)
Long2
  • The Long terminal repeat (LTR) is about 600 nt long, of which the U3 region is 450, the R sequence 100 and the U5 region some 70 nt long. (wikipedia.org)
  • Matching subscriptions: Dr. Geo bug report https://bugs.launchpad.net/bugs/2020185 Title: Crash when very long lines Status in Dr. Geo: In Progress Bug description: With the Smalltalk Sketch 'Chaotic Sequence', modifying the code as bellow: n / 5 @ (2 * r value * value * (1 - value)) makes the VM to hangs and optionnaly to crash. (gnu.org)
Segment2
  • The segment C-terminal to the beta-propeller domain, residues 599-1092, was studied with nine mAbs. (embl.de)
  • I implemented detecting for those situations with point and polyline objects (segment, ray, polygon, locus, etc). so this 'Chaotic sequence' Smalltalk sketch pass. (gnu.org)
Methods1
  • Methods The Deciphering Developmental Disorders study is using whole exome sequencing in family trios to investigate children with severe, sporadic, undiagnosed developmental delay. (bmj.com)
Domain4
  • The structure of the beta-propeller domain and C-terminal region of the integrin alphaM subunit. (embl.de)
  • This suggests that much of the region C-terminal to the beta-propeller domain folds independently of association with the beta2 subunit. (embl.de)
  • The KDM5A (JARID1A) sequence starting with exon 28 still contains the sequence encoding the C-terminal PHD domain. (atlasgeneticsoncology.org)
  • The method, named Predikin, identifies key conserved substrate-determining residues in the kinase catalytic domain that contact the substrate in the region of the phosphorylation site and so determine the sequence surrounding the phosphorylation site. (biomedcentral.com)
Mild1
  • Repeated mild traumatic brain injury triggers pathology in asymptomatic C9ORF72 transgenic mice. (medscape.com)
Family1
  • Some members of the family also show sequence similarities in their cytoplasmic regions. (copewithcytokines.org)
Host1
  • ZBED evolution: repeated utilization of DNA transposons as regulators of diverse host functions. (nih.gov)
Region2
  • The structure of the C-terminal region is unknown. (embl.de)
  • This probe hybridized specifically to sequences of the inverted terminal repeat region which in case of Rac H include a deletion of 0.8 kb. (uni-muenchen.de)
Data2
  • I analyzed the presence of HERV sequences on consensus cis-regulatory elements (cCREs) from ENCODE data. (mdpi.com)
  • Use with SnapGene software or the free Viewer to visualize additional data and align other sequences. (addgene.org)
Internal2
  • it flanks ACCORD2_I internal sequence. (girinst.org)
  • Equally critical are the promoters, enhancers, and what are called ITRs, or internal terminal repeats. (aao.org)
Study1
  • Case 4 was a phenotypically isolated case recruited into an undiagnosed rare disorders sequencing study. (bmj.com)
Leads2
  • Unfortunately, patients are already in the terminal stage at this time, and the cancer cells have already invaded the surrounding organs or metastasized far away, which leads to the loss of the curative chance for most patients ( 1 ). (frontiersin.org)
  • MG is an autoimmune disorder that leads to fatigable skeletal muscle weakness with repeated movements. (medscape.com)
Previous1
  • Accurately overwriting previous lines of bash terminal output when text is wider than terminal (e.g. wraps mutliple lines)? (stackexchange.com)
Distinct1
  • Ablation of the carboxy-terminal end of MAMDC2 causes a distinct muscular dystrophy. (medscape.com)
Case1
  • In the general case, you might also consider GNU Screen if your terminal isn't configured to support hotkeys like Michael Mrozek mentioned. (stackexchange.com)
Severe1
  • Psychomotor developmental outcomes appear variable between patients, and we propose a possible genotype-phenotype correlation, with disruption of Pur repeat III resulting in a more severe phenotype. (bmj.com)
Details1
  • Details are the same as in (A). TP1 - TP4 = tetratricopeptide repeats 1 through 4. (lu.se)
Text1
  • Repeating a text-output terminal command, in a scrollable ncurses-like interface? (stackexchange.com)