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)
8 rows where transcript_id = 3485057
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
17202765 | GT-AG | 0 | 0.0001545077917983 | 211 | rna-gnl|WGS:SAUD|Avbf_05555-RA_mrna 3485057 | 1 | 14706 | 14916 | Armadillidium vulgare 13347 | TCC|GTAAGTTTTT...ATATATATAATA/ATATATATAATA...AACAG|GGA | 0 | 1 | 1.646 |
17202766 | GT-AG | 0 | 1.000000099473604e-05 | 19830 | rna-gnl|WGS:SAUD|Avbf_05555-RA_mrna 3485057 | 2 | 15130 | 34959 | Armadillidium vulgare 13347 | GAG|GTAATATACA...AAACTTTTGAAT/AGTGCATTCATT...ATAAG|GGA | 0 | 1 | 16.255 |
17202767 | GT-AG | 0 | 1.000000099473604e-05 | 3954 | rna-gnl|WGS:SAUD|Avbf_05555-RA_mrna 3485057 | 3 | 35056 | 39009 | Armadillidium vulgare 13347 | GCG|GTCAGAACCA...TAATTTTTCTCA/ATTTTTCTCATG...ATCAG|TGT | 0 | 1 | 22.84 |
17202768 | GT-AG | 0 | 1.000000099473604e-05 | 570 | rna-gnl|WGS:SAUD|Avbf_05555-RA_mrna 3485057 | 4 | 39149 | 39718 | Armadillidium vulgare 13347 | AGG|GTAAGAGATT...GAAATTTTGACA/TTTTGTCTTATG...ATAAG|TAT | 1 | 1 | 32.373 |
17202769 | GT-AG | 0 | 0.0005785731634648 | 1318 | rna-gnl|WGS:SAUD|Avbf_05555-RA_mrna 3485057 | 5 | 40010 | 41327 | Armadillidium vulgare 13347 | CAG|GTAACGTATA...AGATTTTTAATG/TTTAAATTAATT...ACCAG|CAT | 1 | 1 | 52.332 |
17202770 | GT-AG | 0 | 1.000000099473604e-05 | 77 | rna-gnl|WGS:SAUD|Avbf_05555-RA_mrna 3485057 | 6 | 41610 | 41686 | Armadillidium vulgare 13347 | AGG|GTAATTAAAT...ACCATCTTGATT/ACCATCTTGATT...TGCAG|GAG | 1 | 1 | 71.674 |
17202771 | GT-AG | 0 | 1.000000099473604e-05 | 155 | rna-gnl|WGS:SAUD|Avbf_05555-RA_mrna 3485057 | 7 | 41795 | 41949 | Armadillidium vulgare 13347 | CAG|GTTAGCTATG...TAATACTTAACC/GTTTTACTAATA...TTCAG|CTT | 1 | 1 | 79.081 |
17202772 | GT-AG | 0 | 1.000000099473604e-05 | 367 | rna-gnl|WGS:SAUD|Avbf_05555-RA_mrna 3485057 | 8 | 42099 | 42465 | Armadillidium vulgare 13347 | TTG|GTAAAGAATA...AAGATTTTAATG/AAGATTTTAATG...TGTAG|ACC | 0 | 1 | 89.3 |
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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]);