introns
Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)
- id
- INTEGER (primary key), globally unique identifier for each intron
- dinucleotide_pair
- TEXT, terminal dinucleotide sequences of the intron
- is_minor
- INTEGER, indicates if the intron is a minor intron (1) or not (0)
- score
- REAL, score representing the probability (0-100%) of the intron being minor
- length
- INTEGER, length of the intron in base pairs
- transcript_id
- INTEGER (foreign key referencing transcripts(id)), parent transcript
- ordinal_index
- INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
- start
- INTEGER, start position of the intron in the genome
- end
- INTEGER, end position of the intron in the genome
- taxonomy_id
- INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
- scored_motifs
- TEXT, motifs scored for the intron
- phase
- INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
- in_cds
- INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
- relative_position
- REAL, relative position of the intron within the transcript (as a percentage of coding length)
9 rows where transcript_id = 2279661
This data as json, CSV (advanced)
Suggested facets: is_minor, score, phase
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
12240212 | GT-AG | 1 | 96.73626837500748 | 1242 | rna-XM_027980746.1 2279661 | 1 | 3628959 | 3630200 | Aphis gossypii 80765 | CTG|GTATCCTTTT...TACTCCTTAATT/ATATTATTAATT...ATAAG|GTA | 2 | 1 | 2.945 |
12240213 | GT-AG | 0 | 1.000000099473604e-05 | 215 | rna-XM_027980746.1 2279661 | 2 | 3630328 | 3630542 | Aphis gossypii 80765 | CAG|GTTAGTGAAA...TTTTTATTACAC/AATTATATAATT...TACAG|GTG | 0 | 1 | 12.069 |
12240214 | GT-AG | 0 | 1.000000099473604e-05 | 179 | rna-XM_027980746.1 2279661 | 3 | 3630679 | 3630857 | Aphis gossypii 80765 | AAG|GTAATATAAT...ATCATATTAATA/TTAATATTTATT...CATAG|GTA | 1 | 1 | 21.839 |
12240215 | GT-AG | 0 | 1.000000099473604e-05 | 3728 | rna-XM_027980746.1 2279661 | 4 | 3631006 | 3634733 | Aphis gossypii 80765 | TGG|GTAATTAAAT...AATATTTTGATT/AATATTTTGATT...ATTAG|AAT | 2 | 1 | 32.471 |
12240216 | GT-AG | 0 | 0.0009719749989131 | 62 | rna-XM_027980746.1 2279661 | 5 | 3634834 | 3634895 | Aphis gossypii 80765 | ATT|GTAAGTTTAA...TATTTTTTAATA/TTTATTTTCAAT...TTTAG|GCT | 0 | 1 | 39.655 |
12240217 | GT-AG | 0 | 1.6586835725014616e-05 | 128 | rna-XM_027980746.1 2279661 | 6 | 3634988 | 3635115 | Aphis gossypii 80765 | TGG|GTAAAGTATA...TTGTTTTTAAAA/TACATTTTTACT...CCTAG|AAA | 2 | 1 | 46.264 |
12240218 | GT-AG | 0 | 0.0001503149773786 | 70 | rna-XM_027980746.1 2279661 | 7 | 3635204 | 3635273 | Aphis gossypii 80765 | TTA|GTAAGTTTAA...AAAATTTTAAAT/TATAAATTGATT...TTTAG|GAA | 0 | 1 | 52.586 |
12240219 | GT-AG | 0 | 1.000000099473604e-05 | 563 | rna-XM_027980746.1 2279661 | 8 | 3635598 | 3636160 | Aphis gossypii 80765 | GAG|GTACGGTAGA...TTCATTTTAATA/TATTAATTCATT...TTTAG|ATG | 0 | 1 | 75.862 |
12240220 | GT-AG | 0 | 0.0232492341017195 | 80 | rna-XM_027980746.1 2279661 | 9 | 3636390 | 3636469 | Aphis gossypii 80765 | CAG|GTATTTATTT...TATGTCTTAATT/TTAATTCTAACA...ATTAG|GTT | 1 | 1 | 92.313 |
Advanced export
JSON shape: default, array, newline-delimited, object
CREATE TABLE "introns" ( "id" INTEGER, "dinucleotide_pair" TEXT, "is_minor" INTEGER, "score" REAL, "length" INTEGER, "transcript_id" INTEGER, "ordinal_index" INTEGER, "start" INTEGER, "end" INTEGER, "taxonomy_id" INTEGER, "scored_motifs" TEXT, "phase" INTEGER, "in_cds" INTEGER, "relative_position" REAL ,PRIMARY KEY ([id]), FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]), FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id]) ); CREATE INDEX [idx_introns_transcript_id] ON [introns] ([transcript_id]); CREATE INDEX [idx_introns_taxonomy_id] ON [introns] ([taxonomy_id]); CREATE INDEX [idx_introns_phase] ON [introns] ([phase]); CREATE INDEX [idx_introns_is_minor] ON [introns] ([is_minor]); CREATE INDEX [idx_introns_dinucleotide_pair] ON [introns] ([dinucleotide_pair]); CREATE INDEX [idx_introns_score] ON [introns] ([score]); CREATE INDEX [idx_introns_in_cds] ON [introns] ([in_cds]);