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
elongated in frame polypeptide N terminalUnrated elongated_in_frame_polypeptide_N_terminal_elongationUnrated
prophageUnrated
circular single stranded RNA chromosomeUnrated circular_single_stranded_RNA_chromosomeUnrated
invalidated by chimeric cDNAUnrated invalidated_by_chimeric_cDNAUnrated
inversion derived deficiency plus duplicationUnrated inversion_derived_deficiency_plus_duplicationUnrated
syntenic regionUnrated syntenic_regionUnrated
mitochondrial sequenceUnrated mitochondrial_sequenceUnrated
X_elementUnrated X element core sequenceUnrated
linear double stranded DNA chromosomeUnrated linear_double_stranded_DNA_chromosomeUnrated
protein_stability_elementUnrated
recoded codonUnrated recoded_codonUnrated
modified cytidineUnrated modified_cytidineUnrated
orphanUnrated
viral sequenceUnrated viral_sequenceUnrated virus sequenceUnrated
increased transcript stability variantUnrated increased_transcript_stability_variantUnrated
UTR regionUnrated UTR_regionUnrated
V clusterUnrated V_clusterUnrated V-CLUSTERUnrated
maxi-circle geneUnrated maxicircle geneUnrated maxicircle_geneUnrated
4-thiouridineUnrated four thiouridineUnrated four_thiouridineUnrated s4UUnrated
double stranded DNA virusUnrated ds DNA viral sequenceUnrated ds_DNA_viral_sequenceUnrated
IREUnrated iron responsive elementUnrated iron_responsive_elementUnrated
V VJ J clusterUnrated V_VJ_J_clusterUnrated V-(VJ)-J-CLUSTERUnrated
single stranded oligonucleotideUnrated single strand oligoUnrated single strand oligonucleotideUnrated ss oligoUnrated ss_oligoUnrated ss oligonucleotideUnrated
non cytoplasmic polypeptide regionUnrated non_cytoplasmic_polypeptide_regionUnrated non_cytoplasm_locationUnrated
Ngaro retrotransposonUnrated Ngaro YR retrotransposonUnrated Ngaro_YR_retrotransposonUnrated RYN retrotransposonUnrated
RNase_MRP_RNA_geneUnrated
aspartyl-transfer ribonucleic acidUnrated aspartyl-transfer RNAUnrated aspartyl tRNAUnrated aspartyl_tRNAUnrated
non canonical 5' splice siteUnrated non canonical five prime splice siteUnrated non-canonical five prime splice siteUnrated non_canonical_five_prime_splice_siteUnrated
mitochondrial chromosomeUnrated mitochondrial_chromosomeUnrated
5-methyluridineUnrated five methyluridineUnrated five_methyluridineUnrated m5UUnrated
chromosomeUnrated
loss of function variantUnrated loss_of_function_variantUnrated
conserved non-coding elementUnrated conserved non-coding sequenceUnrated nc conserved regionUnrated nc_conserved_regionUnrated noncoding conserved regionUnrated
g6AUnrated N6 glycinylcarbamoyladenosineUnrated N6-glycinylcarbamoyladenosineUnrated N6_glycinylcarbamoyladenosineUnrated
beta turn type six a oneUnrated beta_turn_type_six_a_oneUnrated type VIa1 beta turnUnrated type VIa1 turnUnrated
interchromosomalUnrated
Heterochromatin KnobUnrated knobUnrated
single molecule fish probeUnrated smFISH_probeUnrated
RNA stability elementUnrated RNA_stability_elementUnrated
DTM transposonUnrated MLE transposonUnrated MuDRUnrated MULEUnrated Mutator TIR transposonUnrated Mutator_TIR_transposonUnrated Mutator transposonUnrated Mu transposonUnrated
C_D_box_scaRNA_geneUnrated C/D scaRNA geneUnrated
peptide localization signalUnrated peptide_localization_signalUnrated
mRNA with plus 2 frameshiftUnrated mRNA_with_plus_2_frameshiftUnrated
5-methoxycarbonylmethyl-2'-O-methyluridineUnrated five methoxycarbonylmethyl two prime O methyluridineUnrated five_methoxycarbonylmethyl_two_prime_O_methyluridineUnrated mcm5UmUnrated
coding endUnrated coding_endUnrated translation_endUnrated translation termination siteUnrated
SL3 acceptor siteUnrated SL3_acceptor_siteUnrated
mitochondrial scaffoldUnrated mitochondrial_scaffoldUnrated mitochondrial supercontigUnrated mitochondrial_supercontigUnrated
feature alterationUnrated feature_variantUnrated
modified uridineUnrated modified_uridineUnrated
gene array memberUnrated gene_array_memberUnrated
three prime-three prime overlapUnrated three_prime_three_prime_overlapUnrated
25S rRNA geneUnrated 25S_rRNA_geneUnrated cytosolic_rRNA_25S_geneUnrated
J C clusterUnrated J_C_clusterUnrated J-C-CLUSTERUnrated
histone modificationUnrated histone_modificationUnrated
CUnrated CysUnrated cysteineUnrated
NMD_transcriptUnrated NMD transcript variantUnrated NMD_transcript_variantUnrated Nonsense mediated decay transcript variantUnrated VEP:NMD_transcript_variantUnrated
base_call_error_correctionUnrated
apicoplast geneUnrated apicoplast_geneUnrated
H3K23 dimethylation siteUnrated H3K23_dimethylation_siteUnrated H3K23me2Unrated
cytosolic 18S ribosomal RNAUnrated cytosolic 18S rRNAUnrated cytosolic_18S_rRNAUnrated cytosolic rRNA 18SUnrated
non_synonymous_codingUnrated nonsynonymous variantUnrated nonsynonymous_variantUnrated
mRNA with minus 2 frameshiftUnrated mRNA_with_minus_2_frameshiftUnrated
peptide coilUnrated peptide_coilUnrated
splice boundaryUnrated splice junctionUnrated splice_junctionUnrated
Jannovar:stop_retained_variantUnrated snpEff:NON_SYNONYMOUS_STOPUnrated snpEff:SYNONYMOUS_STOPUnrated stop retained variantUnrated stop_retained_variantUnrated VAAST:stop_retainedUnrated VAAST:stop_retained_variantUnrated VEP:stop_retained_variantUnrated
autocatalytically spliced intronUnrated autocatalytically_spliced_intronUnrated INSDC_qualifier:autocatalytically_spliced_intronUnrated
attL_siteUnrated
BAC read contigUnrated BAC_read_contigUnrated
BREdUnrated BREd_motifUnrated
ANNOVAR:exonicUnrated exon variantUnrated exon_variantUnrated Jannovar:exon_variantUnrated snpEff:EXONUnrated VAAST:exon_variantUnrated
post translationally regulated by protein modificationUnrated post-translationally regulated by protein modificationUnrated post_translationally_regulated_by_protein_modificationUnrated
variant phenotypeUnrated variant_phenotypeUnrated
INSDC_qualifier:pseudoUnrated pseudogenic CDSUnrated pseudogenic_CDSUnrated
increased enzyme activityUnrated increased enzyme activity variantUnrated increased_enzyme_activity_variantUnrated
C-D_H_ACA_box_scaRNA_geneUnrated C/D-H/ACA scaRNA geneUnrated
1-methylinosineUnrated m1IUnrated one methylinosineUnrated one_methylinosineUnrated
gene with mRNA recoded by translational bypassUnrated gene_with_mRNA_recoded_by_translational_bypassUnrated
2'-O-methyluridineUnrated two prime O methyluridineUnrated two_prime_O_methyluridineUnrated UmUnrated
stop gained-NMD triggeringUnrated stop_gained_NMD_triggeringUnrated stop gained variant-nonsense-mediated decay triggeringUnrated
allelically excludedUnrated allelically_excludedUnrated
tagUnrated
tiling path fragmentUnrated tiling_path_fragmentUnrated
mature transcript regionUnrated mature_transcript_regionUnrated
5-carboxymethylaminomethyl-2-thiouridineUnrated cmnm5s2UUnrated five carboxymethylaminomethyl two thiouridineUnrated five_carboxymethylaminomethyl_two_thiouridineUnrated
conserved regionUnrated conserved_regionUnrated INSDC_note:conserved_regionUnrated
RNA internal loopUnrated RNA_internal_loopUnrated
transcribed unitary pseudogeneUnrated transcribed_unitary_pseudogeneUnrated
group I intronUnrated group_I_intronUnrated
substitution artifactUnrated substitution_artifactUnrated
prokaryotic_promoterUnrated Prokaryotic promoterUnrated
forkhead motifUnrated forkhead_motifUnrated
V heptamerUnrated V_heptamerUnrated V-HEPTAMERUnrated
peptidylUnrated
methylinosineUnrated
polypeptide binding motifUnrated polypeptide_binding_motifUnrated
enzymaticUnrated
sequence locationUnrated sequence_locationUnrated
transcript secondary structure variantUnrated transcript_secondary_structure_variantUnrated
conservedUnrated
Mitochondrial A+T regionUnrated mitochondrial_control_regionUnrated Mitochondrial DNA control regionUnrated Mitochondrial NCRUnrated Mitochondrial noncoding regionUnrated MtDNA control regionUnrated MtDNA_control_regionUnrated

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