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 = 20745219

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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
111171754 GT-AG 0 8.343955815087423e-05 666 rna-XM_044637555.1 20745219 1 1128517 1129182 Mangifera indica 29780 GAG|GTATGTCAAC...TTACTCGTAACA/TTCTATTTCATT...TTTAG|CTG 1 1 38.857
111171755 GT-AG 0 1.000000099473604e-05 217 rna-XM_044637555.1 20745219 2 1129526 1129742 Mangifera indica 29780 GAG|GTAGATAGTT...AAATGCTTAATG/CAGTGTTTGACC...TTTAG|GTT 2 1 46.633
111171756 GT-AG 0 0.013940781601527 195 rna-XM_044637555.1 20745219 3 1130527 1130721 Mangifera indica 29780 GAT|GTATGGATCC...ATTTTCTTGATA/ATTTTCTTGATA...AACAG|CTT 0 1 64.407
111171757 GT-AG 0 1.000000099473604e-05 243 rna-XM_044637555.1 20745219 4 1130846 1131088 Mangifera indica 29780 ATG|GTGAGTTGTC...CAATCCCTGACT/CAATCCCTGACT...TATAG|GGG 1 1 67.218
111171758 GT-AG 0 0.0101406686507786 444 rna-XM_044637555.1 20745219 5 1131309 1131752 Mangifera indica 29780 CTG|GTATGCATGG...TTATTATTAACA/TTATTATTAACA...TGTAG|GTA 2 1 72.206
111171759 GT-AG 0 1.000000099473604e-05 91 rna-XM_044637555.1 20745219 6 1132212 1132302 Mangifera indica 29780 CTG|GTTAGTTTTG...ATGCCCTTAATG/GTCTTTCTTATT...GGCAG|GAC 2 1 82.612
111181615 GT-AG 0 1.000000099473604e-05 125 rna-XM_044637555.1 20745219 7 1132608 1132732 Mangifera indica 29780 GTG|GTAAGTGTTC...GGTTATTCAACT/TGGTTATTCAAC...CTCAG|GTA   0 89.526

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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]);