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 = 30628723

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Suggested facets: dinucleotide_pair, 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
171035996 GT-AG 0 0.0062410144615314 535 rna-XM_020514743.1 30628723 2 1284584 1285118 Rhincodon typus 259920 CAG|GTACACTTTT...TCACTCTAGATT/CCTATATTCACT...GTTAG|AAT 0 1 5.97
171035997 GT-AG 0 1.000000099473604e-05 1117 rna-XM_020514743.1 30628723 3 1285315 1286431 Rhincodon typus 259920 AAA|GTAAGAATGT...TGTGCTTTAAAT/TTTCTTTTTATG...TTTAG|TTG 1 1 21.367
171035998 GT-AG 0 1.614212965182912e-05 1655 rna-XM_020514743.1 30628723 4 1286515 1288169 Rhincodon typus 259920 CAG|GTACTGATTT...TATTCCTGGATC/CTGGATCTAACA...GACAG|GTT 0 1 27.887
171035999 GT-AG 0 1.000000099473604e-05 1147 rna-XM_020514743.1 30628723 5 1288435 1289581 Rhincodon typus 259920 AAG|GTGAGAAACA...TTAATGTTGAAT/TTAATGTTGAAT...TGCAG|CTA 1 1 48.704
171036000 GT-AG 0 1.000000099473604e-05 433 rna-XM_020514743.1 30628723 6 1289770 1290202 Rhincodon typus 259920 CTA|GTGAGTACAC...TCTTTTTTAATG/TCTTTTTTAATG...TCCAG|ATA 0 1 63.472
171036001 GT-AG 0 1.000000099473604e-05 1202 rna-XM_020514743.1 30628723 7 1290338 1291539 Rhincodon typus 259920 GAG|GTGAGTGTGC...TATTTTTTATTA/GTATTTTTTATT...TATAG|CAA 0 1 74.077
171036006 GT-GC 0 0.0001942142478618 270 rna-XM_020514743.1 30628723 1 1284275 1284544 Rhincodon typus 259920 TGG|GTGTAATCGG...TGTTCTGAAACT/CTCGATTTCATT...AATGC|AGA   0 3.849

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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]);