where to find e coli ASM584v1 annotation file

I need to check someone's study on e coli which use the ASM584v1 annotation. It's easy to find the latest version on NCBI which is ASM584v2 but I can not get the link to download the old version gff annotation file on Assembly. Any idea where can I get it?

genome sequencing

• 2,917 views • link

updated 8.8 years ago by Kevin Blighe

• written 8.8 years ago by --panda-- •

1 answer

You can download the genomic sequence from here (I just did): http://ecogene.org/ecodownload/sequence

However, luckily, you can download both the genomic sequence and matched GTF reference from Ensembl. It took a while for me to search the FTP site but I got it in the end. The last Ensembl version to include ASM584v1 appears to have been Ensembl release 21:

• 0 views • link

written 8.8 years ago by Kevin Blighe

More posts like this

Reference genome assembly
written 3.0 years ago by singhankit973 •

This is the data i have and i have retrieved the sequences and mapped the reads with respect to reference genome. Now what should I …
How to download an assembly using accession number in GFF3 format from NCBI?
written 3.9 years ago by nazukbedi007 •

Hello, I want to download an assembly for an E.coli genome with the accession number: GCF_000005855.1 in GFF3 format. However, I am not able to …
Gene annotation for Andrographis paniculata
written 4.7 years ago by evoclive •

Hi everyone I'm looking for the gene annotation for the plant Andrographis paniculata. There are two assemblies on NCBI for this organism (https://www.ncbi.nlm.nih.gov/assembly/organism/175694/latest/). However, I …
GRCh37 GFF filter transcript isoforms by RefSeq Select tag or longest
written 5.0 years ago by Carambakaracho

Dear all, I want to filter the "*[RefSeq Select][1]*" transcript isoforms in the [GRCh37.p13][2] human genome annotation gff ([GCF_000001405.25_GRCh37.p13_genomic.gff.gz][3]). Specifically my goal is to retain …
News: NCBI Datasets - try it out!
written 6.4 years ago by vkkodali_ncbi

## See full blog post on NCBI Insights: https://ncbiinsights.ncbi.nlm.nih.gov/2020/03/30/ncbi-datasets/ NCBI introduces [Datasets][1], a new resource that lets you easily gather data from across NCBI databases. …
Why is the new platypus assembly (11 years 'newer') not chromosome level?
written 7.5 years ago by Luis Nassar

I often see this trend on GenBank assemblies where you have older chromosome level assemblies and then newer PacBio/illumina assemblies which are not. Are these …
Human in NCBI Genomes
written 9.1 years ago by int11ap1

I want to download the human annotation from NCBI Genomes. Searching the term *human* in [https://www.ncbi.nlm.nih.gov/genome/][1] I redirects me into [https://www.ncbi.nlm.nih.gov/genome/?term=human][2] So, when I click …
transcriptome shotgun assembly annotation
written 9.7 years ago by najibveto •

hello i am working on fish and i am doing research on fathead minnow but there is lack in genes deposited in NCBI database but …
Download complete bacterial genomes and associated plasmid sequences from NCBI
written 9.9 years ago by wanderingstefan •

Hey all! I am trying to download all completely assembled bacterial genomes together with the associated plasmid sequences. I download the complete sequences using biopython: …
DNA de-novo assembly for plants different than rest organisms?
written 11.8 years ago by chefarov

Hello all, I am using cloudbrush de-novo assembler in order to perform assembly on illumina reads from [gardenia][1] (plant). Following the same process which is …