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
copy number changeUnrated copy_number_changeUnrated
modified L valineUnrated modified L-valineUnrated modified_L_valineUnrated ModValUnrated
G-quadruplexUnrated G_quadruplexUnrated G quartetUnrated G-quartetUnrated G_quartetUnrated G tetradUnrated G-tetradUnrated guanine tetradUnrated
Hoogsteen base pairUnrated Hoogsteen_base_pairUnrated
regulatory uORFUnrated uORFUnrated upstream ORFUnrated
edited mRNAUnrated edited_mRNAUnrated
J spacerUnrated J_spacerUnrated J-SPACERUnrated
+2 frameshift variantUnrated plus 2 frameshift variantUnrated plus_2_frameshift_variantUnrated
TERRAUnrated
cloned regionUnrated cloned_regionUnrated cloned segmentUnrated
STREP_motifUnrated stress-starvation response element of Schizosaccharomyces pombeUnrated
5_prime_UTR_uORF_frameshift_variantUnrated
3' long terminal repeatUnrated 3' LTRUnrated three prime LTRUnrated three_prime_LTRUnrated
box H/ACA snoRNA gene, H ACA box snoRNA gene, H/ACA box snoRNA geneUnrated H_ACA_box_snoRNA_geneUnrated
gene silenced by histone deacetylationUnrated gene_silenced_by_histone_deacetylationUnrated
3D polypeptide structure variantUnrated 3D_polypeptide_structure_variantUnrated
splice donor variant-NMD escapingUnrated splice_donor_variant_NMD_escapingUnrated splice donor variant-nonsense-mediated decay escapingUnrated
V D J clusterUnrated V_D_J_clusterUnrated V-D-J-CLUSTERUnrated
mRNA recoded by translational bypassUnrated mRNA_recoded_by_translational_bypassUnrated
ncRNA geneUnrated ncRNA_geneUnrated non-coding RNA geneUnrated
transcription end siteUnrated transcription_end_siteUnrated
gRNA geneUnrated gRNA_geneUnrated
repeat componentUnrated repeat_componentUnrated
insertional duplicationUnrated insertional_duplicationUnrated
box H/ACA snoRNAUnrated H ACA box snoRNAUnrated H/ACA box snoRNAUnrated H_ACA_box_snoRNAUnrated SNORAUnrated
polycistronic primary transcriptUnrated polycistronic_primary_transcriptUnrated
H4K12acUnrated H4K12 acetylation siteUnrated H4K12_acetylation_siteUnrated
flanking regionUnrated flanking_regionUnrated
chloroplast DNA readUnrated chloroplast_DNA_readUnrated
V DJ J C clusterUnrated V_DJ_J_C_clusterUnrated V-(DJ)-J-C-CLUSTERUnrated
nucleotide_to_protein_binding_siteUnrated
bipartite inversionUnrated bipartite_inversionUnrated
copy number decreaseUnrated copy_number_decreaseUnrated
trinucleotide repeat expansionUnrated trinucleotide_repeat_expansionUnrated
INSDC_qualifier:miRNAUnrated micro RNAUnrated microRNAUnrated miRNAUnrated small temporal RNAUnrated stRNAUnrated
experimentally_defined_binding_regionUnrated
H4K acylation regionUnrated H4K_acylation_regionUnrated
intronic regulatory regionUnrated intronic_regulatory_regionUnrated
amplification originUnrated amplification_originUnrated
mate pairUnrated read-pairUnrated read_pairUnrated
VD geneUnrated V_D_GENEUnrated VD_gene_segmentUnrated
group III intronUnrated group_III_intronUnrated
dh repeatUnrated dh_repeatUnrated
intrachromosomal_translocationUnrated
internal UTRUnrated internal_UTRUnrated
INSDC_qualifier:snoRNAUnrated small nucleolar RNAUnrated snoRNAUnrated
homologUnrated homologous regionUnrated homologous_regionUnrated homologueUnrated
teb1 recognition motifUnrated teb1_recognition_motifUnrated
directional motif 5Unrated DMp5Unrated DPE1 motifUnrated DPE1_motifUnrated
5-carboxymethylaminomethyluridineUnrated cmnm5UUnrated five carboxymethylaminomethyluridineUnrated five_carboxymethylaminomethyluridineUnrated
5-methylcytidineUnrated five methylcytidineUnrated five_methylcytidineUnrated m5CUnrated
variant_genomeUnrated
decreased gene product levelUnrated decreased_gene_product_levelUnrated decreased transcription levelUnrated decreased_transcription_levelUnrated reduced gene product levelUnrated reduced_gene_product_levelUnrated reduced transcription levelUnrated reduced_transcription_levelUnrated
IG joining pseudogeneUnrated IG_joining_pseudogeneUnrated IG J pseudogeneUnrated IG_J_pseudogeneUnrated Immunoglobulin Joining PseudogeneUnrated Immunoglobulin_Joining_PseudogeneUnrated
enhancerUnrated INSDC_qualifier:enhancerUnrated
gamma turn inverseUnrated gamma_turn_inverseUnrated
5-formyl-2'-O-methylcytidineUnrated f5CmUnrated five formyl two prime O methylcytidineUnrated five_formyl_two_prime_O_methylcytidineUnrated
recombinationally inverted geneUnrated recombinationally_inverted_geneUnrated
capped mRNAUnrated capped_mRNAUnrated
DCE SIIIUnrated DCE_SIIIUnrated
beta turn type eightUnrated beta_turn_type_eightUnrated type VIII beta turnUnrated type VIII turnUnrated
inactive catalytic siteUnrated inactive_catalytic_siteUnrated
mRNA recoded by codon redefinitionUnrated mRNA_recoded_by_codon_redefinitionUnrated
INSDC_feature:propeptideUnrated propeptide region of CDSUnrated propeptide_region_of_CDSUnrated
RNA polymerase III TATA boxUnrated RNA_polymerase_III_TATA_boxUnrated
cyanelle chromosomeUnrated cyanelle_chromosomeUnrated
5' nc exonUnrated 5' non coding exonUnrated five prime noncoding exonUnrated five_prime_noncoding_exonUnrated
INSDC_feature:mat_peptideUnrated mature protein regionUnrated mature_protein_regionUnrated
reference_genomeUnrated
TFRSUnrated transcription factor regulatory siteUnrated transcription_factor_regulatory_siteUnrated
SecUnrated selenocysteineUnrated UUnrated
group IIB intronUnrated group_IIC_intronUnrated
IG_D_geneUnrated IGD_geneUnrated immunoglobulin_D_geneUnrated Immunoglobulin_Diversity_ geneUnrated
beta bulge loopUnrated beta_bulge_loopUnrated
phenylalanine tRNA primary transcriptUnrated phenylalanine_tRNA_primary_transcriptUnrated
3-methyluridineUnrated m3UUnrated three methyluridineUnrated three_methyluridineUnrated
leucoplast geneUnrated leucoplast_geneUnrated
engineered foreign transposable elementUnrated engineered_foreign_transposable_elementUnrated
H3K9 tri-methylation siteUnrated H3K9_trimethylation_siteUnrated
ModArgUnrated modified L arginineUnrated modified L-arginineUnrated modified_L_arginineUnrated
modified L selenocysteineUnrated modified L-selenocysteineUnrated modified_L_selenocysteineUnrated
intrinsically unstructured polypeptide regionUnrated intrinsically_unstructured_polypeptide_regionUnrated
V D J C clusterUnrated V_D_J_C_clusterUnrated V-D-J-C-CLUSTERUnrated
CCAAT motifUnrated CCAAT_motifUnrated
non_stop_decay_transcriptUnrated NSD_transcriptUnrated
cleaved initiator methionineUnrated cleaved_initiator_methionineUnrated
INSDC_qualifier:long_terminal_repeatUnrated long terminal repeatUnrated long_terminal_repeatUnrated LTRUnrated
dextrosynaptic chromosomeUnrated dextrosynaptic_chromosomeUnrated
1-methyl-3-(3-amino-3-carboxypropyl) pseudouridineUnrated m1acp3YUnrated one_methyl_three_three_amino_three_carboxypropyl_pseudouridineUnrated
de novo variantUnrated de_novo_variantUnrated
miniature inverted repeat transposable elementUnrated MITEUnrated
five_prime_coding_exon_coding_regionUnrated five prime exon coding regionUnrated
H3K56acUnrated H3K56 acetylation siteUnrated H3K56_acetylation_siteUnrated
retronUnrated
TFBS fusion Unrated TFBS_fusionUnrated transcription factor binding site fusionUnrated
proximal sequence elementUnrated PSE motifUnrated PSE_motifUnrated
CDSUnrated coding sequenceUnrated coding_sequenceUnrated INSDC_feature:CDSUnrated
mRNA with minus 1 frameshiftUnrated mRNA_with_minus_1_frameshiftUnrated
H2BK20acUnrated H2BK20 acetylation siteUnrated H2BK20_acetylation_siteUnrated
INSDC_qualifier:Y_RNAUnrated Y RNAUnrated Y_RNAUnrated

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