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
non ATG start codonUnrated non canonical start codonUnrated non-canonical start codonUnrated non_canonical_start_codonUnrated
improved high quality draftUnrated improved_high_quality_draftUnrated
INSDC_note:replication_start_siteUnrated replication start siteUnrated replication_start_siteUnrated
io6AUnrated N6 cis hydroxyisopentenyl adenosineUnrated N6_cis_hydroxyisopentenyl_adenosineUnrated N6-(cis-hydroxyisopentenyl)adenosineUnrated
5_prime_UTR_uORF_stop_codon_gain_variantUnrated uSTOP_gainedUnrated
long term repeat componentUnrated LTR componentUnrated LTR_componentUnrated
SNV artifactUnrated SNV_artifactUnrated
vertebrate immunoglobulin T cell receptor gene clusterUnrated vertebrate_immunoglobulin/T-cell receptor gene clusterUnrated vertebrate_immunoglobulin_T_cell_receptor_gene_clusterUnrated
aneuploid chromosomeUnrated aneuploid_chromosomeUnrated
m4CUnrated N4 methylcytidineUnrated N4-methylcytidineUnrated N4_methylcytidineUnrated
miR encoding Y-RNA primary transcriptUnrated miR_encoding_Y_RNA_primary_transcriptUnrated
partially processed cDNA cloneUnrated partially_processed_cDNA_cloneUnrated
V DJ clusterUnrated V_DJ_clusterUnrated V-(DJ)-CLUSTERUnrated
8-oxoAUnrated 8-oxoadenineUnrated 8_oxoadenineUnrated
A-boxUnrated A_boxUnrated
disruptive increase in CDS lengthUnrated disruptive inframe insertionUnrated disruptive_inframe_insertionUnrated Jannovar:disruptive_inframe_insertionUnrated snpEff:CODON_CHANGE_PLUS_CODON_INSERTIONUnrated
INSDC_note:nucleotide_motifUnrated nucleotide motifUnrated nucleotide_motifUnrated
INSDC_qualifier:vault_RNAUnrated vault RNAUnrated vault_RNAUnrated
gene subarray memberUnrated gene_subarray_memberUnrated
processed transcriptUnrated processed_transcriptUnrated
double stranded RNA chromosomeUnrated double_stranded_RNA_chromosomeUnrated
homologous chromosome recognition and pairing locusUnrated homologous_chromosome_recognition_and_pairing_locusUnrated
foreign transposable elementUnrated foreign_transposable_elementUnrated
filamentation and invasion response elementUnrated FREUnrated
miR encoding lncRNA primary transcriptUnrated miR_encoding_lncRNA_primary_transcriptUnrated
small regulatory ncRNAUnrated small_regulatory_ncRNAUnrated
5-aminomethyl-2-thiouridineUnrated five aminomethyl two thiouridineUnrated five_aminomethyl_two_thiouridineUnrated nm5s2UUnrated
haplotypeUnrated
silenced by histone methylationUnrated silenced_by_histone_methylationUnrated
small nuclear RNA U4Unrated snRNA U4Unrated U4 small nuclear RNAUnrated U4 snRNAUnrated U4_snRNAUnrated
polyploidUnrated
edited transcript featureUnrated edited_transcript_featureUnrated
methylated AUnrated methylated_AUnrated methylated adenineUnrated methylated_adenineUnrated methylated adenine baseUnrated methylated adenine residueUnrated
proximal_promoter_elementUnrated
overlapping feature setUnrated overlapping_feature_setUnrated
gene with dicistronic primary transcriptUnrated gene_with_dicistronic_primary_transcriptUnrated
intron base 5Unrated intron_base_5Unrated
FRT flankedUnrated FRT_flankedUnrated
terminator of type 2 RNApol III promoterUnrated terminator_of_type_2_RNApol_III_promoterUnrated
INSDC_feature:rRNAUnrated ribosomal ribonucleic acidUnrated ribosomal RNAUnrated rRNAUnrated
non conservative amino acid substitutionUnrated non_conservative_amino_acid_substitutionUnrated
tmRNA coding pieceUnrated tmRNA_coding_pieceUnrated
KEN boxUnrated KEN_boxUnrated
recoded mRNAUnrated recoded_mRNAUnrated
doubleUnrated
G to A transitionUnrated G_to_A_transitionUnrated
polypeptide sequence variantUnrated polypeptide_sequence_variantUnrated
INSDC_qualifier:meioticUnrated INSDC_qualifier:meiotic_recombinationUnrated meiotic recombination regionUnrated meiotic_recombination_regionUnrated
polyA sequenceUnrated polyA_sequenceUnrated
ModAspUnrated modified L aspartic acidUnrated modified L-aspartic acidUnrated modified_L_aspartic_acidUnrated
antisenseUnrated
Endogenous Retrovirus LTR retrotransposonUnrated Endogenous_Retrovirus_LTR_retrotransposonUnrated HERVUnrated RLE retrotransposonUnrated
dicistronic primary transcriptUnrated dicistronic_primary_transcriptUnrated
RACE sequence tagUnrated RSTUnrated
modified L threonineUnrated modified L-threonineUnrated modified_L_threonineUnrated ModThrUnrated
cytosolic large subunit rRNA geneUnrated cytosolic_LSU_rRNA_geneUnrated
tetraloopUnrated
telomeric transcriptUnrated telomeric_transcriptUnrated
transcribed_non_processed_pseudogeneUnrated transcribed unprocessed pseudogeneUnrated transcribed_unprocessed_pseudogeneUnrated
CDS_extensionUnrated CDS ExtensionUnrated elongated CDSUnrated elongated_CDSUnrated
plastid rRNAUnrated plastid_rRNAUnrated
gene component regionUnrated gene_component_regionUnrated
feature attributeUnrated feature_attributeUnrated
snoRNA primary transcriptUnrated snoRNA_primary_transcriptUnrated
short tandem repeat variationUnrated short_tandem_repeat_variationUnrated str variationUnrated
gain of function variantUnrated gain_of_function_variantUnrated
glycyl tRNAUnrated glycyl_tRNAUnrated
glycine tRNA primary transcriptUnrated glycine_tRNA_primary_transcriptUnrated
coding conserved regionUnrated coding_conserved_regionUnrated
long terminal repeat transcriptUnrated long_terminal_repeat_transcriptUnrated LTR transcriptUnrated
ANNOVAR:exonic;splicingUnrated exonic splice region variantUnrated exonic_splice_region_variantUnrated
5' UTRUnrated five_prime_untranslated_regionUnrated five prime UTRUnrated five_prime_UTRUnrated INSDC_feature:5'UTRUnrated
TADUnrated topologically associated domainUnrated topologically_associated_domainUnrated
guide RNA regionUnrated guide_RNA_regionUnrated
asparaginyl-transfer ribonucleic acidUnrated asparaginyl-transfer RNAUnrated asparaginyl tRNAUnrated asparaginyl_tRNAUnrated
elongated polypeptide C terminalUnrated elongated_polypeptide_C_terminalUnrated
hypoploidUnrated
5-methyl-2-thiouridineUnrated five methyl 2 thiouridineUnrated five_methyl_2_thiouridineUnrated m5s2UUnrated
polyadenylated mRNAUnrated polyadenylated_mRNAUnrated
tmRNA regionUnrated tmRNA_regionUnrated
sequence attributeUnrated sequence_attributeUnrated
initiatorUnrated initiator motifUnrated INR motifUnrated INR_motifUnrated
INSDC_qualifier:satelliteUnrated satellite DNAUnrated satellite_DNAUnrated
circularUnrated
small nucleolar RNA U3 gene, snoRNA U3 gene, U3 small nucleolar RNA gene, U3 snoRNA geneUnrated U3_snoRNA_geneUnrated
small nuclear RNA U1Unrated snRNA U1Unrated U1 small nuclear RNAUnrated U1 snRNAUnrated U1_snRNAUnrated
chromosome number variationUnrated chromosome_number_variationUnrated Jannovar:chromosome_number_variationUnrated
LINE1_deletionUnrated
7SL SINE elementUnrated 7SL SINE retrotransposonUnrated 7SL_SINE_retrotransposonUnrated RSL retrotransposonUnrated
pol III promoterUnrated polymerase III promoterUnrated RNApol III promoterUnrated RNApol_III_promoterUnrated RNA polymerase C promoterUnrated
mRNA_contigUnrated
iDNAUnrated INSDC_feature:iDNAUnrated intervening DNAUnrated
2'-O-ribosylguanosine (phosphate)Unrated Gr(p)Unrated two prime O ribosylguanosine phosphateUnrated two_prime_O_ribosylguanosine_phosphateUnrated
m6t6AUnrated N6 methyl N6 threonylcarbamoyladenosineUnrated N6-methyl-N6-threonylcarbamoyladenosineUnrated N6_methyl_N6_threonylcarbamoyladenosineUnrated
isoleucyl-transfer ribonucleic acidUnrated isoleucyl-transfer RNAUnrated isoleucyl tRNAUnrated isoleucyl_tRNAUnrated
vectorUnrated vector repliconUnrated vector_repliconUnrated
VJ geneUnrated V-J-GENEUnrated VJ_gene_segmentUnrated
INSDC_qualifier:ribosomal_slippageUnrated ribosomal frameshiftUnrated ribosomal slippageUnrated translational frameshiftUnrated translational_frameshiftUnrated
box C/D snoRNA gene, C D box snoRNA gene, C/D box snoRNA geneUnrated C_D_box_snoRNA_geneUnrated
sequencing primerUnrated sequencing_primerUnrated

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