TGIF-DB: terse genomics interface for developing botany.

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Date: May 13, 2021
From: BMC Research Notes(Vol. 14, Issue 1)
Publisher: BioMed Central Ltd.
Document Type: Website overview
Length: 1,190 words
Lexile Measure: 1890L

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Abstract :

Objectives Pearl millet (Pennisetum glaucum) is a staple cereal crop for semi-arid regions. Its whole genome sequence and deduced putative gene sequences are available. However, the functions of many pearl millet genes are unknown. Situations are similar for other crop species such as garden asparagus (Asparagus officinalis), chickpea (Cicer arietinum) and Tartary buckwheat (Fagopyrum tataricum). The objective of the data presented here was to improve functional annotations of genes of pearl millet, garden asparagus, chickpea and Tartary buckwheat with gene annotations of model plants, to systematically provide such annotations as well as their sequences on a website, and thereby to promote genomics for those crops. Data description Sequences of genomes and transcripts of pearl millet, garden asparagus, chickpea and Tartary buckwheat were downloaded from a public database. These transcripts were associated with functional annotations of their Arabidopsis thaliana and rice (Oryza sativa) counterparts identified by BLASTX. Conserved domains in protein sequences of those species were identified by the HMMER scan with the Pfam database. The resulting data was deposited in the figshare repository and can be browsed on the Terse Genomics Interface for Developing Botany (TGIF-DB) website (http://webpark2116.sakura.ne.jp/rlgpr/). Keywords: Arabidopsis, Garden asparagus, Chickpea, Genomics, Pearl millet, Plant, Rice, Tartary buckwheat

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Gale Document Number: GALE|A665467995