standards > model/format > DOI:10.25504/FAIRsharing.qaaj0q


deprecated Gene Feature File version 1

Abbreviation: GFF


General Information
This record was deprecated on Nov. 25, 2016 for the following reason(s): According to GMOD, this format has been superseded, first by GFF2, and then by GFF3 (https://biosharing.org/bsg-s000235)

The GFF file format stands for "Gene Finding Format" and was invented at the Sanger Centre. GFF is a supported format in GMOD, but it is now deprecated and if you have a choice you should use GFF3.



How to cite this record FAIRsharing.org: GFF; Gene Feature File version 1; DOI: https://doi.org/10.25504/FAIRsharing.qaaj0q; Last edited: Feb. 22, 2018, 2:03 p.m.; Last accessed: Nov 13 2018 8:14 p.m.


Record updated: Nov. 25, 2016, 10:54 a.m. by The FAIRsharing Team.

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Implementing Databases (4)
Central Aspergillus Data REpository
This project aims to support the international Aspergillus research community by gathering all genomic information regarding this significant genus into one resource - The Central Aspergillus REsource (CADRE). CADRE facilitates visualisation and analyses of data using the Ensembl software suite. Much of our data has been extracted from Genbank and augmented with the consent of the original sequencing groups. This additional work has been carried out using both automated and manual efforts, with support from specific annotation projects and the general Aspergillus community.

MAPPER-2
This resource provides information primarily on the upstream non-coding sequence data of genes in 3 genomes which gives insight into the transcription factors binding sites (TFBSs). For each transcript, the region scanned extends from 10,000bp upstream of the transcript start to 50bp downstream of the coding sequence start. Therefore, the database contains putative binding sites in the gene promoter and in the initial introns and non-coding exons. Information displayed for each putative binding site includes the transcription factor name, its position (absolute on the chromosome, or relative to the gene), the score of the prediction, and the region of the gene the site belongs to. If the selected gene has homologs in any of the other two organisms, the program optionally displays the putative TFBSs in the homologs.

UCSC Genome Browser database
Genome assemblies and aligned annotations for a wide range of vertebrates and model organisms, along with an integrated tool set for visualizing, comparing, analyzing and sharing both publicly available and user-generated genomic datasets.

Plant Promoter Database
Genome-wide plant promoter database for several plant species, including Arabidopsis thaliana, rice, poplar, and Physcomitrella patens.

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