Sequence Ontology (SO)

Name: Sequence Ontology (SO)
Published: 2026-11-13T13:52:25.298104Z

Selected English labels and exact synonyms from the Sequence Ontology (SO), release 2026-08-07, with source identifiers and spelling preserved. Licensed CC BY 4.0; full attribution is listed under Sources. Under semantic review; not endorsed by the ontology's maintainers.

Curator: Chloe Harris

Languages shown reflect this page; source translations may cover only some concepts.

English
complex_regulonUnrated simple regulonUnrated
2KB upstream variantUnrated 2KB_upstream_variantUnrated near-gene-5Unrated
mcmo5UUnrated uridine 5-oxyacetic acid methyl esterUnrated uridine five oxyacetic acid methyl esterUnrated uridine_five_oxyacetic_acid_methyl_esterUnrated
H3K4 tri-methylationUnrated H3K4_trimethylationUnrated
capUnrated
transcript fusionUnrated transcript_fusionUnrated
sense_intronicUnrated sense intronic lncRNAUnrated sense_intronic_lncRNAUnrated sense_intronic_non-coding_RNAUnrated
consensus mRNAUnrated consensus_mRNAUnrated
cytosolic 2S rRNAUnrated cytosolic_2S_rRNAUnrated cytosolic rRNA 2SUnrated
novel sequence insertionUnrated novel_sequence_insertionUnrated
amino acid deletionUnrated amino_acid_deletionUnrated
INSDC_feature:N_regionUnrated N-regionUnrated N_regionUnrated
archaeal intronUnrated archaeal_intronUnrated
hetero compound chromosomeUnrated hetero-compound chromosomeUnrated hetero_compound_chromosomeUnrated
TF binding siteUnrated TF_binding_siteUnrated transcription factor binding siteUnrated
decreased enzyme activityUnrated decreased enzyme activity variantUnrated decreased_enzyme_activity_variantUnrated reduced enzyme activityUnrated reduced enzyme activity variantUnrated
primary transcript regionUnrated primary_transcript_regionUnrated
solo LTRUnrated solo_LTRUnrated
mature transcriptUnrated mature_transcriptUnrated
enhancer blocking elementUnrated enhancer_blocking_elementUnrated INSDC_qualifier:enhancer_blocking_elementUnrated
untranslated regionUnrated UTRUnrated
INSDC_feature:tRNAUnrated tRNAUnrated
helitronUnrated
mRNA with plus 1 frameshiftUnrated mRNA_with_plus_1_frameshiftUnrated
m22GUnrated N2,N2-dimethylguanosineUnrated N2_N2_dimethylguanosineUnrated
B-recognition elementUnrated BRE motifUnrated BREu motifUnrated BREu_motifUnrated transcription factor B-recognition elementUnrated
miRNA antiguide Unrated miRNA_antiguideUnrated miRNA passenger strandUnrated miRNA starUnrated
polypeptide_structural_motifUnrated
m62AmUnrated N6,N6,2'-O-trimethyladenosineUnrated N6_N6_2_prime_O_trimethyladenosineUnrated
3'_overlapping_ncrnaUnrated 3prime_overlapping_ncRNAUnrated three_prime_overlapping_ncrnaUnrated three prime overlapping noncoding rnaUnrated
A_box_type_1Unrated
leucyl-transfer ribonucleic acidUnrated leucyl-transfer RNAUnrated leucyl tRNAUnrated leucyl_tRNAUnrated
INSDC_qualifier:matrix_attachment_regionUnrated MARUnrated matrix association regionUnrated matrix attachment regionUnrated matrix attachment siteUnrated matrix_attachment_siteUnrated nuclear matrix association regionUnrated nuclear matrix attachment siteUnrated scaffold attachment siteUnrated scaffold matrix attachment regionUnrated S/MARUnrated SMARUnrated
D DJ C clusterUnrated D_DJ_C_clusterUnrated D-(DJ)-C-CLUSTERUnrated
incomplete_transcript_CDSUnrated Seattleseq:coding-notMod3Unrated Seattleseq:coding-unknownUnrated
transcript regulatory region fusionUnrated transcript_regulatory_region_fusionUnrated
dg repeatUnrated dg_repeatUnrated
ModGlnUnrated modified L glutamineUnrated modified L-glutamineUnrated modified_L_glutamineUnrated
mini geneUnrated mini_geneUnrated
miR encoding tRNA primary transcriptUnrated miR_encoding_tRNA_primary_transcriptUnrated
snRNA primary transcriptUnrated snRNA_primary_transcriptUnrated
GBF binding sequenceUnrated G-boxUnrated G_boxUnrated
specific recombination siteUnrated specific_recombination_siteUnrated
polypeptide loss of function variantUnrated polypeptide_loss_of_function_variantUnrated
paternally imprintedUnrated paternally_imprintedUnrated
asx turn left handed type oneUnrated asx_turn_left_handed_type_oneUnrated
attP siteUnrated attP_siteUnrated
heritable phenotypic markerUnrated heritable_phenotypic_markerUnrated phenotypic markerUnrated
transcript amplificationUnrated transcript_amplificationUnrated VEP:transcript_amplificationUnrated
INSDC_qualifier:transcriptional_cis_regulatory_regionUnrated transcriptional cis regulatory regionUnrated transcriptional_cis_regulatory_regionUnrated transcription-control regionUnrated
H2A.ZK13acUnrated H2AZK13acUnrated H2AZK13 acetylation siteUnrated H2AZK13_acetylation_siteUnrated
8-oxoGUnrated 8-oxoguanineUnrated 8_oxoguanineUnrated
INSDC_qualifier:piRNAUnrated piRNAUnrated piwi-associated RNAUnrated
cDNA cloneUnrated cDNA_cloneUnrated
splice enhancerUnrated splice_enhancerUnrated
DNAUnrated
miRNA primary transcript regionUnrated miRNA_primary_transcript_regionUnrated
transcriptionally repressedUnrated transcriptionally_repressedUnrated
negatively autoregulatedUnrated negatively_autoregulatedUnrated
synonymousUnrated
short hairpin RNAUnrated shRNAUnrated small hairpin RNAUnrated
chromosomal structural elementUnrated chromosomal_structural_elementUnrated
Jannovar:upstream_gene_variantUnrated snpEff:UPSTREAMUnrated upstream gene variantUnrated upstream_gene_variantUnrated VEP:upstream_gene_variantUnrated
edited transcript by A to I substitutionUnrated edited_transcript_by_A_to_I_substitutionUnrated
predicted by ab initio computationUnrated predicted_by_ab_initio_computationUnrated
circular double stranded DNA chromosomeUnrated circular_double_stranded_DNA_chromosomeUnrated
5' splice siteUnrated donor splice siteUnrated five_prime_cis_splice_siteUnrated five prime splice siteUnrated splice donor siteUnrated
DSR motifUnrated DSR_motifUnrated
transcribed clusterUnrated transcribed_clusterUnrated
chromoplast chromosomeUnrated chromoplast_chromosomeUnrated
polyA primed cDNA cloneUnrated polyA_primed_cDNA_cloneUnrated
insertionalUnrated
SL4 acceptor siteUnrated SL4_acceptor_siteUnrated
chloroplast DNAUnrated chloroplast_DNAUnrated
seryl-transfer RNAUnrated seryl tRNAUnrated seryl_tRNAUnrated
gene with transcript with translational frameshiftUnrated gene_with_transcript_with_translational_frameshiftUnrated
rho dependent bacterial terminatorUnrated rho_dependent_bacterial_terminatorUnrated
oligoUnrated oligonucleotideUnrated
non_adjacent_residuesUnrated non_consUnrated non consecutiveUnrated
partially characterized chromosomal mutationUnrated partially_characterized_chromosomal_mutationUnrated
aberration breakpointUnrated aberration_junctionUnrated chromosome breakpointUnrated chromosome_breakpointUnrated INSDC_qualifier:chromosome_breakpointUnrated
function uncertain variantUnrated function_uncertain_variantUnrated
class II transposonUnrated DNA transposonUnrated DNA_transposonUnrated
tmRNA acceptor pieceUnrated tmRNA_acceptor_pieceUnrated
GUnrated GlyUnrated glycineUnrated
haplotype blockUnrated haplotype_blockUnrated
beta turn type sixUnrated beta_turn_type_sixUnrated cis-proline loopUnrated type VI beta turnUnrated type VI turnUnrated
dominant negativeUnrated dominant negative variantUnrated dominant_negative_variantUnrated
inside intron parallelUnrated inside_intron_parallelUnrated
anti-codon loopUnrated anticodon loopUnrated anticodon_loopUnrated
INSDC_qualifier:terminalUnrated terminal repeatUnrated terminal_repeatUnrated
CDEIIIUnrated centromere DNA Element IIIUnrated centromere_DNA_Element_IIIUnrated
st_turn_iilUnrated st turn left handed type twoUnrated st_turn_left_handed_type_twoUnrated
V DJ J clusterUnrated V_DJ_J_clusterUnrated
SECIS elementUnrated SECIS_elementUnrated
T_cell_receptor_V_geneUnrated TR_V_GeneUnrated
apicoplast sequenceUnrated apicoplast_sequenceUnrated
functional candidate geneUnrated functional_candidate_geneUnrated functional target geneUnrated
autosynaptic chromosomeUnrated autosynaptic_chromosomeUnrated
INSDC_qualifier:processedUnrated processed pseudogeneUnrated processed_pseudogeneUnrated retropseudogeneUnrated

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