GET /genome
- Returns a list of complete genomes.
Query Prameters:
Response:
spid
- species ID
sp
- species code
abbrev
- Abbreviated name
orgname
- Organism name
strain
- Strain name
taxid
- Taxonomy ID
tax_family
- Taxonomy family name
tax_genus
- Taxonomy genus name
tax_species
- Taxonomy species name
source
- Source
medid
-
date_release
- Release of date
date_modify
- Modified date
seq_status
- Sequence status
GET /genome/:sp
Returns information about a specific genome.
Query Parameters:
sp
- species code (3-5 letters e.g. eco)
Response:
GET /chromosome/:sp
- Returns chromosome information for given spid.
Query Parameters:
sp
- species code (3-5 letters e.g. eco)
Response:
spid
- species ID
sp
- species code
name
- Chromosome name
seqno
- Number of chromosome
type
- Chromosome type
shape
- Chromosome shape
accession
- NCBI accession No.
accession_gbk
- GenBank accesson No.
seq_length
- Chromosome length
count_genes
- Number of genes
source
- Source
GET /chromseq/:sp
- Returns all chromosome sequcences for given spid. To download a fasta format file, specify "format=fasta"
Query Parameters:
sp
- species code (3-5 letters e.g. eco)
Response:
spid
- species ID
sp
- species code
name
- Chromosome name
seqno
- Number of chromosome
type
- Chromosome type
shape
- Chromosome shape
accession
- NCBI accession No.
accession_gbk
- GenBank accesson No.
seq_length
- Chromosome length
count_genes
- Number of genes
source
- Source
GET /gene/:sp
- Returns a list of all genes for a given spid.
Query Parameters:
sp
- species code (3-5 letters e.g. eco)
Response:
sp
- species code
name
- Gene name
gene
- Gene symbol
from1
-
to1
-
dir
- Gene direction
transl_table
-
codon_start
- Codon start
protid
- NCBI accession No.
protid_gbk
- GenBank accession No.
gi
- Gene Identifier (Discontinued by NCBI)
geneid
- NCBI Gene ID
descr
- Description
GET /gene/:sp/:name
Query Parameters:
sp
- species code (3-5 letters e.g. eco)
name
- Gene name
Response:
GET /proteinseq/:sp
- Returns all protein sequence for given sp. To download a fasta format file, specify "format=fasta"
Query Parameters:
sp
- species code (3-5 letters e.g. eco)
Response:
sp
- species code
name
- Chromosome name
gene
- Gene Symbol
descr
- Description
seq
- Sequence
GET /proteinseq/:sp/:name
- Returns protein sequence for given sp and gene name. To download a fasta format file, specify "format=fasta"
Query Parameters:
sp
- species code (3-5 letters e.g. eco)
name
- Gene name
Response:
sp
- species code
name
- Chromosome name
gene
- Gene Symbol
descr
- Description
seq
- Sequence
GET /geneseq/:sp/:name
- Returns all nucleotide sequence for given sp. To download a fasta format file, specify "format=fasta"
Query Parameters:
sp
- species code (3-5 letters e.g. eco)
Response:
GET /geneseq/:sp/:name
- Returns nucleotide sequence for given sp and gene name. To download a fasta format file, specify "format=fasta"
Query Parameters:
sp
- species code (3-5 letters e.g. eco)
name
- Gene name
Response:
- Same as /proteinseq/:sp/:name
GET /ortholog-group/top/:clustid
- Returns members of a given orthologous group. (Version > 2022)
Query Parameters:
clustid
- Cluster ID (Integer e.g. 1001)
Response:
clustid
- Cluster ID
sp
- species code
name
-
dom
-
from1
-
to1
-
GET /ortholog-group/:taxid/:clustid
- Returns members of a phylogeny-specific orthologous group. (Version > 2022)
Query Parameters:
taxid
- Taxonomy ID (e.g. tax1101)
clustid
- Cluster ID (Integer e.g. 1001)
Response:
- Same as /ortholog-group/top/:clustid
GET /ortholog-group/:taxid/:clustid/extend
- Returns extended members of a phylogeny-specific orthologous group. (Version > 2022)
Query Parameters:
taxid
- Taxonomy ID (e.g. tax1101)
clustid
- Cluster ID (Integer e.g. 1001)
Response:
- Same as /ortholog-group/top/:clustid
GET /taxonomy/:taxid
- Returns details for a given taxonomy ID.
Query Parameters:
taxid
- Taxonomy ID (e.g. tax1101)
Response:
taxid
- Taxonomy ID
name
- Sciencific name
rank
- Taxonomic rank