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 = 2279604
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Suggested facets: score, phase
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
12239818 | GT-AG | 0 | 1.000000099473604e-05 | 33074 | rna-XM_027988319.1 2279604 | 1 | 1655794 | 1688867 | Aphis gossypii 80765 | CAG|GTTAGTCGTA...CGAGTTTTGACA/CGAGTTTTGACA...TTTAG|GAC | 2 | 1 | 27.462 |
12239819 | GT-AG | 0 | 1.000000099473604e-05 | 12830 | rna-XM_027988319.1 2279604 | 2 | 1689107 | 1701936 | Aphis gossypii 80765 | CAG|GTGAGTTGAT...CAAGTTTTGATT/TTTGATTTTATT...TTTAG|GAC | 1 | 1 | 38.257 |
12239820 | GT-AG | 0 | 1.000000099473604e-05 | 1720 | rna-XM_027988319.1 2279604 | 3 | 1702110 | 1703829 | Aphis gossypii 80765 | AAG|GTAAAATAAT...TTCATCATAATA/ATAATACTCATC...TACAG|GTG | 0 | 1 | 46.07 |
12239821 | GT-AG | 0 | 1.000000099473604e-05 | 909 | rna-XM_027988319.1 2279604 | 4 | 1704005 | 1704913 | Aphis gossypii 80765 | CAG|GTAATGTATA...TTTCTATTAAAA/ATACTATTCACA...TTTAG|AGC | 1 | 1 | 53.975 |
12239822 | GT-AG | 0 | 0.001230395437844 | 788 | rna-XM_027988319.1 2279604 | 5 | 1705030 | 1705817 | Aphis gossypii 80765 | AAG|GTATTTAATA...TTCTCTTTATTT/TTTATTTTTATT...TTTAG|GAA | 0 | 1 | 59.214 |
12239823 | GT-AG | 0 | 1.000000099473604e-05 | 1824 | rna-XM_027988319.1 2279604 | 6 | 1705984 | 1707807 | Aphis gossypii 80765 | GAG|GTAAAACGTT...ATATTCTTATTG/AATATTCTTATT...CACAG|GGG | 1 | 1 | 66.712 |
12239824 | GT-AG | 0 | 1.000000099473604e-05 | 1397 | rna-XM_027988319.1 2279604 | 7 | 1708052 | 1709448 | Aphis gossypii 80765 | AAG|GTAAAAATAT...TATTGTTTAATA/TATTGTTTAATA...TGTAG|GCC | 2 | 1 | 77.733 |
12239825 | GT-AG | 0 | 1.000000099473604e-05 | 103 | rna-XM_027988319.1 2279604 | 8 | 1709680 | 1709782 | Aphis gossypii 80765 | CAA|GTGAGTATTA...TTCTTCTCAAAT/CTTCTTCTCAAA...TTCAG|ACC | 2 | 1 | 88.166 |
12239826 | GT-AG | 0 | 0.0009666245494208 | 148 | rna-XM_027988319.1 2279604 | 9 | 1709909 | 1710056 | Aphis gossypii 80765 | ATG|GTAAACTTCA...AAATCATTAATT/TTATTATTTATA...TCCAG|GAA | 2 | 1 | 93.857 |
12239827 | GT-AG | 0 | 1.000000099473604e-05 | 68 | rna-XM_027988319.1 2279604 | 10 | 1710127 | 1710194 | Aphis gossypii 80765 | AAA|GTAATAACTT...TGTTCTTTTGTT/ACTGTATTGATT...TACAG|GAA | 0 | 1 | 97.019 |
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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]);