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
parallel beta strandUnrated parallel_beta_strandUnrated
catmat-3rUnrated catmat_right_handed_threeUnrated
transposable element pseudogeneUnrated transposable_element_pseudogeneUnrated
cryptic geneUnrated cryptic_geneUnrated
DJ C clusterUnrated DJ_C_clusterUnrated (DJ)-C-CLUSTERUnrated
DCEUnrated
beta bulge loop fiveUnrated beta_bulge_loop_fiveUnrated
DNA_bindUnrated polypeptide DNA contactUnrated polypeptide_DNA_contactUnrated
radiation hybrid mapUnrated RH mapUnrated RH_mapUnrated
recombinationally rearranged vertebrate immune system geneUnrated recombinationally_rearranged_vertebrate_immune_system_geneUnrated
translationally regulated geneUnrated translationally_regulated_geneUnrated
heptamer of recombination feature of vertebrate immune system geneUnrated heptamer_of_recombination_feature_of_vertebrate_immune_system_geneUnrated
Ni_contact_siteUnrated polypeptide nickel ion contact siteUnrated polypeptide_nickel_ion_contact_siteUnrated
3PRIME_UTRUnrated 3_prime_UTR_variantUnrated 3'UTR variantUnrated Jannovar:3_prime_utr_variantUnrated Seattleseq:3-prime-UTRUnrated snpEff:UTR_3_PRIMEUnrated three prime UTR variantUnrated untranslated-3Unrated VAAST:3_prime_UTR_variantUnrated VAAST:three_prime_UTR_variantUnrated VEP:3_prime_UTR_variantUnrated
interchromosomal breakpointUnrated interchromosomal_breakpointUnrated
pseudouridylation guide snoRNA geneUnrated pseudouridylation_guide_snoRNA_geneUnrated
short tandem repeat expansionUnrated short_tandem_repeat_expansionUnrated str expansionUnrated
codonUnrated
C/D box snoRNA encodingUnrated C_D_box_snoRNA_encodingUnrated
three prime noncoding exonUnrated three_prime_noncoding_exonUnrated
validated cDNA cloneUnrated validated_cDNA_cloneUnrated
ModGlyUnrated modified glycineUnrated modified_glycineUnrated
mitochondrial rRNAUnrated mitochondrial_rRNAUnrated mt_rRNAUnrated Mt rRNAUnrated Mt_rRNAUnrated
C to T transition at pCpG siteUnrated C_to_T_transition_at_pCpG_siteUnrated
gDNAUnrated genomic DNAUnrated genomic_DNAUnrated
VDJ J C clusterUnrated VDJ_J_C_clusterUnrated (VDJ)-J-C-CLUSTERUnrated
engineered plasmidUnrated engineered_plasmidUnrated
3' duplicated transcriptUnrated three prime duplicated transcriptUnrated three_prime_duplicated_transcriptUnrated three prime partially duplicated transcriptUnrated
D-loopUnrated D_loopUnrated INSDC_feature:D-loopUnrated
ANNOVAR:nonframeshift deletionUnrated inframe_codon_lossUnrated inframe decrease in CDS lengthUnrated inframe_deletionUnrated Jannovar:inframe_deletionUnrated VAT:deletionNFSUnrated VEP:inframe_deletionUnrated
interchromosomal mutationUnrated interchromosomal_mutationUnrated
plastid small subunit rRNAUnrated plastid SSU rRNAUnrated plastid_SSU_rRNAUnrated
ligation_based_readUnrated
paternally imprinted geneUnrated paternally_imprinted_geneUnrated
ca_bindUnrated Ca_contact_siteUnrated polypeptide calcium ion contact siteUnrated polypeptide_calcium_ion_contact_siteUnrated
3' intronUnrated three prime intronUnrated three_prime_intronUnrated
m2,7GUnrated N2 7 dimethylguanosineUnrated N2,7-dimethylguanosineUnrated N2_7_dimethylguanosineUnrated
cyanelle sequenceUnrated cyanelle_sequenceUnrated
schellmann loop sevenUnrated schellmann_loop_sevenUnrated seven-residue schellmann loopUnrated
pol I promoterUnrated polymerase I promoterUnrated RNApol I promoterUnrated RNApol_I_promoterUnrated RNA polymerase A promoterUnrated
non-complimentary stemUnrated non_complimentary_stemUnrated noncomplimentary stemUnrated
repliconUnrated
gene cassette memberUnrated gene_cassette_memberUnrated
cytosolic small subunit rRNA geneUnrated cytosolic_SSU_rRNA_geneUnrated
gene with dicistronic transcriptUnrated gene_with_dicistronic_transcriptUnrated
flanking repeatUnrated flanking_repeatUnrated INSDC_qualifier:flankingUnrated
3' RSTUnrated three_prime_RSTUnrated
imprinting control regionUnrated imprinting_control_regionUnrated INSDC_qualifier:imprinting_control_regionUnrated
2-thiouridineUnrated s2UUnrated two thiouridineUnrated two_thiouridineUnrated
st_turn_iirUnrated st turn right handed type twoUnrated st_turn_right_handed_type_twoUnrated
gene with start codon CUGUnrated gene_with_start_codon_CUGUnrated
RNApol III promoter type 3Unrated RNApol_III_promoter_type_3Unrated
expressed sequence assemblyUnrated expressed_sequence_assemblyUnrated
DJ J clusterUnrated DJ_J_clusterUnrated (DJ)-J-CLUSTERUnrated
INSDC_feature:tmRNAUnrated tmRNAUnrated
T cell receptor Variable pseudogeneUnrated T_cell_receptor_Variable_pseudogeneUnrated T cell receptor V pseudogeneUnrated T_cell_receptor_V_pseudogeneUnrated TR V pseudogeneUnrated TR_V_pseudogeneUnrated
chromosomal duplicationUnrated chromosomal_duplicationUnrated
orphan CDSUnrated orphan_CDSUnrated
tiling pathUnrated tiling_pathUnrated
sequence alteration artifactUnrated sequence_alteration_artifactUnrated
standard draftUnrated standard_draftUnrated
macronuclear chromosomeUnrated macronuclear_chromosomeUnrated
cloned genomic insertUnrated cloned_genomic_insertUnrated
cytoplasmic polypeptide regionUnrated cytoplasmic_polypeptide_regionUnrated cytoplasm_locationUnrated
miRNA geneUnrated miRNA_geneUnrated stRNA geneUnrated stRNA_geneUnrated
three prime flanking regionUnrated three_prime_flanking_regionUnrated
modified guanosineUnrated modified_guanosineUnrated
SBMUnrated SIMUnrated SUMO binding motifUnrated SUMO interaction motifUnrated SUMO_interaction_motifUnrated
2'-O-methylpseudouridineUnrated two prime O methylpseudouridineUnrated two_prime_O_methylpseudouridineUnrated YmUnrated
RNATUnrated RNA thermometerUnrated RNA_thermometerUnrated RNA thermoregulatorUnrated thermoregulatorUnrated
transposable element CDSUnrated transposable_element_CDSUnrated
methylwyosineUnrated mimGUnrated
inversionUnrated
restriction enzyme three prime single strand overhangUnrated restriction_enzyme_three_prime_single_strand_overhangUnrated
polypeptide conserved regionUnrated polypeptide_conserved_regionUnrated
5-methylaminomethyl-2-thiouridineUnrated five methylaminomethyl two thiouridineUnrated five_methylaminomethyl_two_thiouridineUnrated mnm5s2UUnrated
DJ J C clusterUnrated DJ_J_C_clusterUnrated (DJ)-J-C-CLUSTERUnrated
H4acUnrated histone 4 acetylation siteUnrated histone_4_acetylation_siteUnrated
extended intronic splice region Unrated extended_intronic_splice_regionUnrated
selenocysteine_gainUnrated
intergenic regionUnrated intergenic_regionUnrated
5kb upstream variantUnrated 5KB_upstream_variantUnrated Seattleseq:upstream-geneUnrated upstreamUnrated
transgenic transposable elementUnrated transgenic_transposable_elementUnrated
histidyl-transfer ribonucleic acidUnrated histidyl-transfer RNAUnrated histidyl tRNAUnrated histidyl_tRNAUnrated
I-boxUnrated I-box promoter motifUnrated
INSDC_qualifier:Y_prime_elementUnrated Y' elementUnrated Y prime elementUnrated Y_prime_elementUnrated
UAG stop codon signalUnrated UAG_stop_codon_signalUnrated
Mn_contact_siteUnrated polypeptide manganese ion contact siteUnrated polypeptide_manganese_ion_contact_siteUnrated
RYV retrotransposonUnrated Viper retrotransposonUnrated Viper YR retrotransposonUnrated Viper_YR_retrotransposonUnrated
INSDC_qualifier:processedUnrated processed pseudogenic rRNAUnrated processed_pseudogenic_rRNAUnrated
rRNA small subunit primary transcriptUnrated rRNA_small_subunit_primary_transcriptUnrated
protein coding primary transcriptUnrated protein_coding_primary_transcriptUnrated
2A_self_cleaving_peptide_regionUnrated
endoplasmic reticulum retention signalUnrated ER retention signalUnrated ER_retention_signalUnrated
allele specific primer extension primerUnrated ASPE primerUnrated ASPE_primerUnrated
5-methoxycarbonylmethyluridineUnrated five methoxycarbonylmethyluridineUnrated five_methoxycarbonylmethyluridineUnrated mcm5UUnrated
oriCUnrated origin of bacterial chromosome replicationUnrated
natural plasmidUnrated natural_plasmidUnrated
splice donor 5th base variantUnrated splice_donor_5th_base_variantUnrated
cytosolic 5.8S LSU rRNAUnrated cytosolic 5.8S ribosomal RNAUnrated cytosolic 5.8S rRNAUnrated cytosolic_5_8S_rRNAUnrated cytosolic rRNA 5 8SUnrated

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