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)
10 rows where transcript_id = 2279610
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Suggested facets: score, phase, in_cds
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
12239870 | GT-AG | 0 | 0.0056772729632733 | 73 | rna-XM_027997471.1 2279610 | 2 | 1302397 | 1302469 | Aphis gossypii 80765 | AAA|GTATGTATTT...AATTTATTGATA/ATTTAATTTATT...TCTAG|GAA | 0 | 1 | 6.062 |
12239871 | GT-AG | 0 | 1.000000099473604e-05 | 167 | rna-XM_027997471.1 2279610 | 3 | 1302708 | 1302874 | Aphis gossypii 80765 | ATG|GTAAATGGTT...TATATTTTATAA/ATATATTTTATA...TTTAG|ATG | 1 | 1 | 16.91 |
12239872 | GT-AG | 0 | 1.000000099473604e-05 | 132 | rna-XM_027997471.1 2279610 | 4 | 1303024 | 1303155 | Aphis gossypii 80765 | CAG|GTAGATTCAA...TATATTTTCTCC/TGTAAACTGATA...TGTAG|GAA | 0 | 1 | 23.701 |
12239873 | GT-AG | 0 | 4.295541502469261e-05 | 63 | rna-XM_027997471.1 2279610 | 5 | 1303317 | 1303379 | Aphis gossypii 80765 | AAG|GTAATTTTTA...TATTTATTATAT/TTTATATTTATT...ATTAG|ATT | 2 | 1 | 31.039 |
12239874 | GT-AG | 0 | 1.000000099473604e-05 | 668 | rna-XM_027997471.1 2279610 | 6 | 1303516 | 1304183 | Aphis gossypii 80765 | TTT|GTAAGGAAAT...GTACTATTAAAC/ATTAAATTGATG...TTCAG|ATC | 0 | 1 | 37.238 |
12239875 | GT-AG | 0 | 0.0004061493705655 | 72 | rna-XM_027997471.1 2279610 | 7 | 1304397 | 1304468 | Aphis gossypii 80765 | GAG|GTATGGTTAT...AATATTTTAACT/AATATTTTAACT...TTCAG|GAT | 0 | 1 | 46.946 |
12239876 | GT-AG | 0 | 0.0002624742361353 | 114 | rna-XM_027997471.1 2279610 | 8 | 1304601 | 1304714 | Aphis gossypii 80765 | ATT|GTAAGTTTAT...ATATTTTTGTTT/GTTTGTCGTACT...ATTAG|ATG | 0 | 1 | 52.963 |
12239877 | GT-AG | 0 | 5.669267364402493e-05 | 59 | rna-XM_027997471.1 2279610 | 9 | 1304991 | 1305049 | Aphis gossypii 80765 | GAG|GTACTTTAAA...AATATATTATTT/ATATTATTTACA...TTTAG|ATT | 0 | 1 | 65.542 |
12239878 | GT-AG | 0 | 0.0724940814455081 | 898 | rna-XM_027997471.1 2279610 | 10 | 1305214 | 1306111 | Aphis gossypii 80765 | AGA|GTATGTTTTT...CGAGCCTTGCTT/GTTTTGTTTATG...TTTAG|GCT | 2 | 1 | 73.017 |
12240584 | GT-AG | 0 | 1.000000099473604e-05 | 197 | rna-XM_027997471.1 2279610 | 1 | 1302081 | 1302277 | Aphis gossypii 80765 | AAG|GTAAGAACAC...AATTTCTTGAAA/AATGGCTTCAAT...TTCAG|AAT | 0 | 2.507 |
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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]);