Downloads

 

LRG data

LRG data is available on the [LRG FTP site] in XML format.

The LRG genomic, transcript and protein sequences are also available in FASTA format on the [LRG FTP site].

There is the possibility to download all the public and pending LRGs:

Status Formats (zipped)
Public [XML], [FASTA]
Pending [XML], [FASTA]

 NOTE: If you can't access to the LRG FTP site through the ftp protocol, you can access it using the http protocol:  [LRG FTP site - HTTP]

 

Summary data

Different files containing summary information about the LRGs are available for download:

Format Description Files location by assembly
GRCh37 GRCh38

BED

The file contains 4 tracks:

  • Public LRG genes
  • Public LRG transcripts, with their exon(s) coordinates
  • Pending LRG genes
  • Pending LRG transcripts, with their exon(s) coordinates

[BED]

[BED]

Tabulated

(LRG genes)

The file lists the LRG genes in genomic coordinates

The columns are:

  • LRG identifier (e.g. LRG_1)
  • HGNC symbol (e.g. COL1A1)
  • Status (public/pending)
  • Chromosome
  • Start
  • End 
  • Strand (1 = forward, -1 = reverse)
[TXT]  [TXT]

Tabulated

(LRG transcripts, exons, proteins)

The file lists the LRG transcripts, exons and protein in genomic coordinates

The columns are:

  • LRG transcript identifier (e.g. LRG_1t1)
  • HGNC symbol (e.g. COL1A1)
  • Chromosome
  • Strand (1 = forward, -1 = reverse)
  • Transcript start
  • Transcript end
  • List of exons coordinates ("start-end" separated by a comma)
  • LRG protein identifier (e.g. LRG_1p1)
  • Protein start
  • Protein end
[TXT] [TXT]

Tabulated
(LRG transcripts + external references)

The file lists the LRG transcripts and their external references
The columns are:

  • LRG ID (e.g. LRG_2)
  • HGNC symbol (e.g. COL1A2)
  • RefSeqGene ID (e.g. NG_007405.1)
  • LRG transcript (e.g. t1)
  • RefSeq transcript ID with the same sequence as the LRG transcript (e.g. NM_000089.3)
  • Ensembl transcript ID with the same sequence as the LRG transcript (e.g. ENST00000297268.10)
  • CCDS ID (e.g. CCDS34682.1)
- [TXT]

 

LRG in Ensembl

The list of LRGs already imported in Ensembl is available in this [text file].

 

LRG schema

The LRG XML schema doumentations are downloadable [here] and the different version of the XML schema definitions (RELAX NG format) are available [here].

 

LRG archived data

Previous versions of the LRGs (in different LRG XML schemas) are available:

Schema version Link
Schema 1.8 [FTP site]
Schema 1.7 [FTP site]
Schema 1.6 [FTP site]