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Microsatellite databases | Genome annotation

Tandem repeats (TRs) are consecutive sequence duplicates abundant in both coding and noncoding genomic sequences. Short TRs of DNA, known as microsatellites, have been discovered by accident in human samples (Wyman and White, 1980), and since have…
PMDBase
Dataset

PMDBase plant microsatellite DNAs database

A database to study microsatellite DNAs and marker development in a wide range…

A database to study microsatellite DNAs and marker development in a wide range of plant species and genome evolution. InPMDBase, 26,230,099 microsatellite DNA entries were identified among 110 genome…

ChloroMitoSSRDB
Dataset

ChloroMitoSSRDB

A comprehensive online database of all SSRs (Simple Sequence Repeats) or STRs…

A comprehensive online database of all SSRs (Simple Sequence Repeats) or STRs (Short Tandem Repeats) or Microsatellites from all sequenced Chloroplast and Mitochondrial genomes available so far…

TRDB
Dataset

TRDB Tandem Repeats DataBase

Provides information on tandem repeats in genomic DNA and tools for their…

Provides information on tandem repeats in genomic DNA and tools for their analysis. TRDB consists of two parts: (i) a web accessible, public repository of information on the presence and…

InSatDb
Dataset

InSatDb

Presents an interactive interface to query information regarding microsatellite…

Presents an interactive interface to query information regarding microsatellite characteristics per se of five fully sequenced insect genomes (fruit-fly, honeybee, malarial mosquito, red-flour beetle…

DPVweb
Dataset

DPVweb

Provides a central source of information about viruses, viroids and satellites…

Provides a central source of information about viruses, viroids and satellites of plants, fungi and protozoa, with some additional data on animal viruses and phages with RNA or ssDNA genomes.

Boechera…
Web

Boechera Microsatellite Website

Archives over 100,000 microsatellite allele calls from 4471 specimens of…

Archives over 100,000 microsatellite allele calls from 4471 specimens of Boechera (Brassicaceae) (including 133 nomenclatural types). Boechera Microsatellite Website allows users to search and…

UgMicroSatdb
Dataset

UgMicroSatdb Unigene MicroSatellite database

A web-based relational database of microsatellites present in unigene sequences…

A web-based relational database of microsatellites present in unigene sequences covering 80 genomes. UgMicroSatdb allows microsatellite search using multiple parameters like microsatellite type…

PSSRdb
Dataset

PSSRdb Polymorphic Simple Sequence Repeats database

Relational Database which provides the information of the Polymorphic Simple…

Relational Database which provides the information of the Polymorphic Simple Sequence Repeats in prokaryotes.

WebSat
Web

WebSat

Predicts microsatellite molecular marker development. WebSat permits to submit…

Predicts microsatellite molecular marker development. WebSat permits to submit sequences, and visualize microsatellites. It allows user to amplify and export the resulting data thank to design of…

SisatBase
Dataset

SisatBase

Provides a collection of simple sequences repeats (SSRs) data. SisatBase is…

Provides a collection of simple sequences repeats (SSRs) data. SisatBase is accompanied of a software that allows functional analyses of SSRs. It focuses on the genome of Sesamum indicum and offers…

FishMicrosat
Dataset

FishMicrosat

A microsatellite database of commercially important fishes and shellfishes of…

A microsatellite database of commercially important fishes and shellfishes of the Indian subcontinent.

PineElm_SSRdb
Dataset

PineElm_SSRdb

Contains 359511 Simple Sequence Repeats (SSRs) of the pineapple. PineElm_SSRdb…

Contains 359511 Simple Sequence Repeats (SSRs) of the pineapple. PineElm_SSRdb can be very useful for researchers work on cross-species transferability of markers, investigating diversity, mapping…

STRBase
Dataset

STRBase Short Tandem Repeat DNA Internet DataBase

An information resource for the forensic DNA typing community with details on…

An information resource for the forensic DNA typing community with details on commonly used short tandem repeat (STR) DNA markers. STRBase consolidates and organizes the abundant literature on this…

CmMDb
Dataset

CmMDb The Cucumis melo L. microsatellite database

The first whole genome based microsatellite DNA marker database of Cucumis melo…

The first whole genome based microsatellite DNA marker database of Cucumis melo L. and comprehensive web resource that aids in variety identification and physical mapping of Cucurbitaceae family. The…

Ricebase
Dataset

Ricebase

An integrative genomic database for rice (Oryza sativa) with an emphasis on…

An integrative genomic database for rice (Oryza sativa) with an emphasis on combining datasets in a way that maintains the key links between past and current genetic studies. Ricebase includes DNA…

OGDD
Dataset

OGDD Olive Genetic Diversity Database

It is a genetic, morphologic and chemical database of worldwide olive tree and…

It is a genetic, morphologic and chemical database of worldwide olive tree and oil having a double function. In fact, besides being a reference system generated for the identification of unkown olive…

MitoSatPlant
Dataset

MitoSatPlant

A repository of plant mitochondrial SSRs (mtSSRs). It contains information for…

A repository of plant mitochondrial SSRs (mtSSRs). It contains information for perfect, imperfect and compound SSRs mined from 92 mitochondrial genomes of green plants, available at NCBI (as of 1 Feb…

TGRD
Dataset

TGRD Tomato Genomic Resources Database

Allows interactive browsing of tomato genes, micro RNAs, simple sequence…

Allows interactive browsing of tomato genes, micro RNAs, simple sequence repeats (SSRs), important quantitative trait loci and Tomato-EXPEN 2000 genetic map altogether or separately along twelve…

SBMDb
Dataset

SBMDb SugarBeet Microsatellite Marker Database

Using a computationally intensive in silico approaches, we mined and catalog…

Using a computationally intensive in silico approaches, we mined and catalog the 145 K short tandem repeats (STR) markers and built the first whole genome based STR database. With the marker…

PTGBase
Dataset

PTGBase

A public database to collect plant genes generated by tandem duplication…

A public database to collect plant genes generated by tandem duplication mechanism in the process of plant evolution. PTGBase delivers the most comprehensive resource available to date, spanning 39…

TRbase
Dataset

TRbase

Provides a platform to study the associations between disease genes and…

Provides a platform to study the associations between disease genes and previously uncharacterized tandem repeats which is a key to understanding the mechanisms of pathogenicity of such diseases.…

The…
Dataset

The Microorganisms Tandem Repeats Database

An internet-based resource to help develop and perform tandem repeats based…

An internet-based resource to help develop and perform tandem repeats based bacterial strain typing. The tools comprise four parts. The Tandem Repeats Database enables the identification of tandem…

CicArMiSatDB
Dataset

CicArMiSatDB

A web resource for exploring microsatellite (Simple Sequence Repeat) markers…

A web resource for exploring microsatellite (Simple Sequence Repeat) markers information for Chickpea.

BuffSatDB
Dataset

BuffSatDB Buffalo MicroSatellite Database

A web based relational database of microsatellite markers, developed using PHP…

A web based relational database of microsatellite markers, developed using PHP and MySQL database.

EuMicroSatdb
Dataset

EuMicroSatdb Eukaryotic MicroSatellite database

A web based relational database for easy and efficient positional mining of…

A web based relational database for easy and efficient positional mining of microsatellites from sequenced eukaryotic genomes.

MoccaDB
Dataset

MoccaDB

An online MySQL-PHP driven relational database that houses annotated and/or…

An online MySQL-PHP driven relational database that houses annotated and/or mapped microsatellite markers in Rubiaceae. MoccaDB will be extremely useful for all researchers working in the areas of…

Kazusa Marker…
Dataset

Kazusa Marker DataBase

Provides useful genomic information for agronomical plants. Kazusa Marker…

Provides useful genomic information for agronomical plants. Kazusa Marker DataBase includes information on DNA markers, e.g., simple sequence repeat (SSR) and single nucleotide polymorphism (SNP)…

HeteroGenome
Dataset

HeteroGenome

Collects latent periodicity regions (with periods up to 2000 bp) revealed by…

Collects latent periodicity regions (with periods up to 2000 bp) revealed by the SS-approach in the genomes of various organisms. Tandem repeats and highly divergent tandem repeats along with the…

ChloroSSRdb
Dataset

ChloroSSRdb

Provides information of all the three types (perfect, imperfect and compound)…

Provides information of all the three types (perfect, imperfect and compound) of simple sequence repeats (SSRs). In accordance with the growing interest in SSR studies, ChloroSSRdb will prove to be a…

LeishMicrosatDB
Dataset

LeishMicrosatDB Leishmania Microsatellite Database

To collect, organize and analyze genomic sequence repeats from various…

To collect, organize and analyze genomic sequence repeats from various Leishmania species.

MICAS
Dataset

MICAS Microsatellite Analysis Server

An interactive user-friendly web-based analysis server to find non-redundant…

An interactive user-friendly web-based analysis server to find non-redundant microsatellites of a selected bacterial or archeal genome sequence.

CGKB
Dataset

CGKB Cowpea Genespace/Genomics Knowledge Base

Leverages modern molecular genetic tools for gene discovery and cowpea…

Leverages modern molecular genetic tools for gene discovery and cowpea improvement. CGKB is an integrated and annotated resource for cowpea genespace sequences (GSS) with features of homology-based…

MMsat
Dataset

MMsat

A database of DNA sequences from GenBank possessing the latent periodicity at…

A database of DNA sequences from GenBank possessing the latent periodicity at high level of statistical significance and having the period length in a range from 2 to 100 bases. The periodicity was…

PIPEMicroDB
Dataset

PIPEMicroDB Pigeonpea Microsatellite database

A web based relational database of microsatellites present in the whole genome…

A web based relational database of microsatellites present in the whole genome sequence.

SNPSTR
Dataset

SNPSTR microsatellite marker and tightly linked SNPs

Provides inferable single nucleotide polymorphisms short tandem repeats…

Provides inferable single nucleotide polymorphisms short tandem repeats (SNPSTRs) for five model species: Homo sapiens, Mus musculus, Rattus norvegicus, Canis familiaris and Gallus gallus. SNPSTR…

VNTRDB
Dataset

VNTRDB

A freely accessible variable number tandem repeat database (VNTRDB) that is…

A freely accessible variable number tandem repeat database (VNTRDB) that is intended to be a resource for helping in the discovery of putatively polymorphic tandem repeat loci and to aid with assay…

TRedD
Dataset

TRedD

Contains the tandem repeats found in the human genome. The database is publicly…

Contains the tandem repeats found in the human genome. The database is publicly available online, and the software for locating the repeats is also freely available. The definition of tandem repeats…

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