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 = 18602149

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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
99340025 GT-AG 0 1.000000099473604e-05 153 rna-XM_012232866.2 18602149 1 2625070 2625222 Jatropha curcas 180498 CAG|GTAATTATTA...CTGTTCTAAAAA/TCTGTTCTAAAA...TGCAG|GTT 0 1 13.667
99340026 GT-AG 0 1.000000099473604e-05 929 rna-XM_012232866.2 18602149 2 2625330 2626258 Jatropha curcas 180498 CAT|GTGAGTATAT...GTTATCTTGAAA/AGAGCTTTTATC...AACAG|GGG 2 1 17.73
99340027 GT-AG 0 1.000000099473604e-05 209 rna-XM_012232866.2 18602149 3 2627187 2627395 Jatropha curcas 180498 CAG|GTGAATGAAT...GTTTTCGTATTT/TCTATGCTTACA...TGCAG|ATA 0 1 52.961
99340028 GT-AG 0 1.000000099473604e-05 483 rna-XM_012232866.2 18602149 4 2627644 2628126 Jatropha curcas 180498 CAG|GTCTGTTCCA...GTTGTTTGGATT/TCTTTTTTCAGA...TGCAG|GAT 2 1 62.377
99340029 GT-AG 0 1.958207083582635e-05 77 rna-XM_012232866.2 18602149 5 2628254 2628330 Jatropha curcas 180498 CAG|GTAATTTTCT...TCTTTTCTGACT/TCTTTTCTGACT...TTCAG|GTG 0 1 67.198
99340030 GT-AG 0 5.630989407154606 91 rna-XM_012232866.2 18602149 6 2628607 2628697 Jatropha curcas 180498 CAG|GTACCCTTTT...GTTTTCTTATAA/TGTTTTCTTATA...CATAG|GAT 0 1 77.677
99340031 GT-AG 0 1.000000099473604e-05 94 rna-XM_012232866.2 18602149 7 2628969 2629062 Jatropha curcas 180498 TAG|GTAAGTTCAT...TTGTCTGTACAA/AATCATCTGACT...TGCAG|GTA 1 1 87.965

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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]);