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)

7 rows where transcript_id = 20745173

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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
111171005 GT-AG 0 1.000000099473604e-05 112 rna-XM_044654640.1 20745173 2 5447486 5447597 Mangifera indica 29780 AAG|GTTTTGATGC...TGTGTTTTATTG/ATGTGTTTTATT...GCTAG|ATG 0 1 69.853
111171006 GT-AG 0 0.0002669706718282 81 rna-XM_044654640.1 20745173 3 5447154 5447234 Mangifera indica 29780 CAA|GTATGTATGC...GTTATGTCAATC/GTCAATCTCATG...CACAG|GTC 2 1 73.176
111171007 GT-AG 0 1.000000099473604e-05 1084 rna-XM_044654640.1 20745173 4 5445925 5447008 Mangifera indica 29780 CAG|GTTTGGAAAC...AAATGTTTGAAA/GAAAATCTGATT...GGTAG|GTA 0 1 75.096
111171008 GT-AG 0 1.000000099473604e-05 96 rna-XM_044654640.1 20745173 5 5445630 5445725 Mangifera indica 29780 TTG|GTGGGCATGT...TTTTTTTTTTCC/GGAAAGTTCACT...TCCAG|GTG 1 1 77.731
111171009 GT-AG 0 1.000000099473604e-05 108 rna-XM_044654640.1 20745173 6 5445192 5445299 Mangifera indica 29780 CAG|GTAGTAATAT...GTGTTTTTATTT/GGTGTTTTTATT...TTTAG|AAG 1 1 82.1
111171010 GT-AG 0 1.000000099473604e-05 270 rna-XM_044654640.1 20745173 7 5444227 5444496 Mangifera indica 29780 CAG|GTCAAGATTT...TGCCACTTAACT/CTTAACTTGAAT...TCCAG|TCC 0 1 91.301
111181588 GT-AG 0 0.0004209853041095 174 rna-XM_044654640.1 20745173 1 5452879 5453052 Mangifera indica 29780 GAG|GTACGCCCCT...TTTGTTTTACTT/TTTTGTTTTACT...ATCAG|GTA   0 2.012

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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]);