IMGT/LIGM-DB logo
Database contains
178929 sequences
from 351 species

IMGT/LIGM-DB documentation

Version:
1.2.2
Database release:
LIGMDB_V12
Citing IMGT/LIGM-DB:
Giudicelli, V. et al., Nucleic Acids Res., 34, D781-D784 (2006). PMID: 16381979 Abstract Full PDF

Introduction

IMGT/LIGM-DB is the first database of IMGT®, the international ImMunoGeneTics information system®, the high-quality integrated database specializing in Immunoglobulins (IG), T cell Receptors (TR) and Major Histocompatibility Complex (MHC) molecules of all vertebrate species, created in 1989 by Marie-Paule Lefranc (LIGM, Université Montpellier II, CNRS and on the web since July 1995. IMGT/LIGM-DB is a comprehensive database of Immunoglobulins (IG) and T cell Receptors (TR) from human and other vertebrates, with translation for fully annotated sequences.

Good to know

Open files

Browser

Query page

Search by

Search by IMGT-ONTOLOGY concepts

IDENTIFICATION

See the full list of standardized IMGT/LIGM-DB keywords

CLASSIFICATION

DESCRIPTION

See the full list of IMGT/LIGM-DB labels

OBTENTION

See the full list of IMGT/LIGM-DB specificities and their sequence repartition

See the full list of standardized IMGT/LIGM-DB keywords

Search by bibliographical references

Result page

Your selection

This section is a summary of your query, detailed field by field.

Your results

This section show the list of sequences retrieved by your query.

Browse and select results

Results are paginated.
Each page show 50 sequences.
The pager first line indicates the total number of sequences retrieved and then the range of displayed sequences.
The pager second line shows the pages you can navigate through to see the retrieved results.

Result table details

Download files

To download multiple sequence flat files:

  1. select the sequences you want to download ticking the checkbox in front of the chosen sequences,
  2. choose the file format,
  3. choose the file type,
  4. click on Download button,
  5. open/save the file to download.

The downloaded file is a zip file that contains at least 3 files:

File format

Available flat file formats are: IMGT, EMBL, FASTA, Translation and dump.

File type

Available flat file types are:

Extract subsequences

Subsequences are extracted only for manually/automatically annotated sequences.
To extract subsequences:

  1. select the sequences for which you want to extract subsequences:
    • ticking the checkbox in front of the chosen sequences,
    • selecting all the sequence on the current page,
    • selecting all the sequence retrieved by your query if the number of sequences does not exceed 60000;
  2. choose the labels for which you want to extract subsequences (Note that the proposed label are coding),
  3. click on 'Extract' button.

Labels to extract

Not all the labels can be extracted.
Amongst the extractable labels, some are coding, so subsequence translation can be proceeded while some are not.

See the full list of IMGT/LIGM-DB labels

The extraction view

You can download extracted subsequences clicking on "Download FASTA" button.
The download file is a zip file that contains

The FASTA header contains 15 fields separated by '|' character composed as follow (field marked with * are mandatory):

Sequence display

Annotation view

This view displays the sequence information organized according to IMGT-ONTOLOGY concepts.

Flat file view

IMGT

This view display the sequence in IMGT flat format, that show IMGT annotations.

EMBL

This view display the sequence in EMBL flat format.

FASTA

This view display the sequence in FASTA format. Sequences are written in blocks of 60 residues.

The FASTA header contains 4 columns separated by pipes composed as follow

Translation

This view display the sequence translation with various frame representations

Dump

This view display the sequence in a dump format. Sequences are displayed following EMBL SQ lines format.

Program changes

Version 1.2.2 (2016/12/07)
  • New page for the list of possible qualifiers.
  • Small internal changes.
Version 1.2 (2016/03/03)
  • Tables in 'Extract subsequences' now show 'Allele or gene' and 'Functionality' for most of gene entity labels.
  • FASTA format header in 'Extract subsequences' has been changed accordingly to IMGT/GENE-DB FASTA format.
Version 1.1 (2015/03/09)
  • Improve gene and allele selections.
  • Add links to IMGT/BlastSearch and IMGT/V-QUEST in 'Views'.
  • Sort values in many lists using (alphanumeric) natural order.
  • Show list of labels in 'Extract subsequences' regarding the sequence result set.
  • Remove bug in querying by specificities.
  • Remove bug when downloading translation file.
Created:
23/07/1995
Database development:
Denys CHAUME, Patrice DUROUX, Nelly JOUFFRE
Database scientific officer:
Marie-Paule Lefranc