Schema for HGNC - HUGO Gene Nomenclature
  Database: hg38    Primary Table: hgnc Data last updated: 2023-02-21
Big Bed File Download: /gbdb/hg38/hgnc/hgnc.bb
Item Count: 47,337
The data is stored in the binary BigBed format.

Format description: A cross-reference table between HUGO Gene Nomenclature Committee (HGNC) IDs and other database IDs.
fieldexampledescription
chromchr1Chromosome (or contig, scaffold, etc.)
chromStart166022189Start position in chromosome
chromEnd166023074End position in chromosome
nameHGNC:36036HGNC Identifier
score0Score from 0-1000
strand.Placeholder value
thickStart0Start of where display should be thick (start codon)
thickEnd0End of where display should be thick (stop codon)
reserved253,66,253Used as itemRgb as of 2004-11-22
symbolRPS3AP10Gene Symbol
geneNameRPS3A pseudogene 10Gene Name
locus_grouppseudogeneLocus Group
locus_typepseudogeneLocus Type
statusApprovedStatus
location1q24.1Cytogenetic Location
location_sortable01q24.1Cytogenetic Location (sortable)
alias_symbolOther Symbols Used
alias_nameOther Names Used
prev_symbolPrevious Approved HGNC Symbols
prev_nameribosomal protein S3a pseudogene 10Previous Approved HGNC Names
gene_groupGene Family
gene_group_idGene Family ID
date_approved_reserved2009-03-06Date Symbol First Approved
date_symbol_changedDate Symbol Last Changed
date_name_changed2019-10-16Date Name Last Changed
date_modified2019-10-16Data Entry Last Changed
entrez_id401975Entrez gene ID
ensembl_gene_idENSG00000226292Ensembl gene ID
vega_idVega gene ID
ucsc_idUCSC gene ID
enaInternational Nucleotide Sequence Database Collaboration accession
refseq_accessionNG_010293RefSeq nucleotide accesions(s)
ccds_idConsensus CDS ID
uniprot_idsUniProt protein accession.
pubmed_id19123937Pubmed PMID
mgd_idMouse genome informatics ID
rgd_idRat genome database ID
lsdbLocus Specific Mutations Database ID
cosmicCatalogue of somatic mutations ID
omim_idOnline Mendelian Inheritance in Man ID
mirbasemirBase ID
homeodbHomeibox Database ID
snornabasesnoRNABase ID
bioparadigms_slcBioparadigms SLC ID
orphanetOrphanet ID
pseudogeneOrgPseudogeneOrg ID
horde_idHORDE ID
meropsMEROPS peptide database
imgtImMunoGeneTics ID
iupharIUPHAR ID
kznf_gene_catalogKZNF Gene Catalog ID
mamitTrnadbMamit-tRNA ID
cdCell Differentiation Database ID
lncrnadblncRNA Database ID
enzyme_idENZYME EC accession
intermediate_filament_dbIntermediate Filament Database
rna_central_idsRNAcentral ID
lncipediaLNCipedia ID
gtrnadbGenomic tRNA Database ID
agrHGNC:36036Alliance of Genome Resources ID
mane_selectMANE Select ID(s)
genccGenCC ID

Sample Rows
 
chromchromStartchromEndnamescorestrandthickStartthickEndreservedsymbolgeneNamelocus_grouplocus_typestatuslocationlocation_sortablealias_symbolalias_nameprev_symbolprev_namegene_groupgene_group_iddate_approved_reserveddate_symbol_changeddate_name_changeddate_modifiedentrez_idensembl_gene_idvega_iducsc_idenarefseq_accessionccds_iduniprot_idspubmed_idmgd_idrgd_idlsdbcosmicomim_idmirbasehomeodbsnornabasebioparadigms_slcorphanetpseudogeneOrghorde_idmeropsimgtiupharkznf_gene_catalogmamitTrnadbcdlncrnadbenzyme_idintermediate_filament_dbrna_central_idslncipediagtrnadbagrmane_selectgencc
chr1166022189166023074HGNC:360360.00253,66,253RPS3AP10RPS3A pseudogene 10pseudogenepseudogeneApproved1q24.101q24.1ribosomal protein S3a pseudogene 102009-03-062019-10-162019-10-16401975ENSG00000226292NG_01029319123937HGNC:36036
chr1166042243166042349HGNC:428410.00253,66,253RNA5SP64RNA, 5S ribosomal pseudogene 64pseudogenepseudogeneApproved1q24.101q24.1RN5S64RNA, 5S ribosomal 642011-08-252012-08-092012-08-092014-11-19100873299ENSG00000207341uc057mzt.1NG_033401HGNC:42841
chr1166048488166091566HGNC:406390.009,99,11FAM78B-AS1FAM78B antisense RNA 1non-coding RNARNA, long non-codingApproved1q24.101q24.1Antisense RNAs19872019-07-252019-07-25105371586ENSG00000203307OTTHUMG00000156135XR_007066708HGNC:40639
chr1166055917166167000HGNC:134950.0013,20,118FAM78Bfamily with sequence similarity 78 member Bprotein-coding genegene with protein productApproved1q24.101q24.1family with sequence similarity 78, member BMicroRNA protein coding host genes16912005-07-182015-11-182016-09-30149297ENSG00000188859OTTHUMG00000034705uc057mzx.1AL626787NM_001017961CCDS30931Q5VT40MGI:2443050RGD:1564387HGNC:13495"ENST00000354422.4|NM_001017961.5"
chr1166154742166154797HGNC:336710.009,99,11MIR921microRNA 921non-coding RNARNA, microApproved1q24.101q24.1hsa-mir-921MIRN921MicroRNAs4762007-10-242008-12-182014-11-19100126349ENSG00000215952uc021peg.1NR_030626MI0005713HGNC:33671
chr1166474744166481564HGNC:322080.00253,66,253FMO7Pflavin containing dimethylaniline monoxygenase 7, pseudogenepseudogenepseudogeneApproved1q24.101q24.1flavin containing monooxygenase 7, pseudogeneFlavin containing monooxygenases16672008-12-082019-04-252019-04-25100337589ENSG00000230231OTTHUMG00000033266NG_01646715077013HGNC:32208
chr1166475771166490038HGNC:524630.009,99,11LINC01675long intergenic non-protein coding RNA 1675non-coding RNARNA, long non-codingApproved1q24.101q24.1Long intergenic non-protein coding RNAs19862016-11-082016-11-08105371590ENSG00000234142OTTHUMG00000033267NR_146890HGNC:52463
chr1166566177166580710HGNC:322090.00253,66,253FMO8Pflavin containing dimethylaniline monoxygenase 8, pseudogenepseudogenepseudogeneApproved1q24.101q24.1flavin containing monooxygenase 8, pseudogeneFlavin containing monooxygenases16672008-12-082019-04-252019-04-25100129007ENSG00000238087OTTHUMG00000033268NG_00975515077013HGNC:32209
chr1166603915166625237HGNC:322100.00253,66,253FMO9Pflavin containing dimethylaniline monoxygenase 9, pseudogenepseudogenepseudogeneApproved1q24.101q24.1RP11-45J16.2flavin containing monooxygenase 9, pseudogeneFlavin containing monooxygenases16672005-08-152019-04-252019-04-25116123ENSG00000215834OTTHUMG00000078309BC014341NR_00292515077013HGNC:32210
chr1166649149166699359HGNC:322110.00253,66,253FMO10Pflavin containing dimethylaniline monoxygenase 10, pseudogenepseudogenepseudogeneApproved1q24.101q24.1flavin containing monooxygenase 10, pseudogeneFlavin containing monooxygenases16672008-12-082019-04-252019-04-25100128181ENSG00000234984OTTHUMG00000034323NG_00981115077013HGNC:32211

HGNC (hgnc) Track Description
 

Description

The HGNC is responsible for approving unique symbols and names for human loci, including protein coding genes, ncRNA genes and pseudogenes, to allow unambiguous scientific communication.

For each known human gene, the HGNC approves a gene name and symbol (short-form abbreviation). All approved symbols are stored in the HGNC database, www.genenames.org, a curated online repository of HGNC-approved gene nomenclature, gene groups and associated resources including links to genomic, proteomic, and phenotypic information. Each symbol is unique and we ensure that each gene is only given one approved gene symbol. It is necessary to provide a unique symbol for each gene so that we and others can talk about them, and this also facilitates electronic data retrieval from publications and databases. In preference, each symbol maintains parallel construction in different members of a gene family and can also be used in other species, especially other vertebrates including mouse.

Data Access

The raw data can be explored interactively with the Table Browser, or the Data Integrator. For computational analysis, genome annotations are stored in a bigBigFile file that can be downloaded from the download server. Regional or genome-wide annotations can be converted from binary data to human readable text using our command line utility bigBedToBed which can be compiled from source code or downloaded as a precompiled binary for your system. Files and instructions can be found in the utilities directory. The utility can be used to obtain features within a given range, for example:

bigBedToBed -chrom=chr6 -start=0 -end=1000000 http://hgdownload.soe.ucsc.edu/gbdb/hg38/hgnc/hgnc.bb stdout

Please refer to our Data Access FAQ for more information or our mailing list for archived user questions.

Credits

HGNC Database, HUGO Gene Nomenclature Committee (HGNC), European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom www.genenames.org.

References

Tweedie S, Braschi B, Gray KA, Jones TEM, Seal RL, Yates B, Bruford EA. Genenames.org: the HGNC and VGNC resources in 2021. Nucleic Acids Res. PMID: 33152070 PMCID: PMC7779007 DOI: 10.1093/nar/gkaa980