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 = 34724206

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
195654379 GT-AG 0 3.700059068159303e-05 679 rna-XM_010536438.2 34724206 1 4255852 4256530 Tarenaya hassleriana 28532 CAG|GTGACTTGCT...TTTGACTTGACT/TTTGTTCTAAAC...TGAAG|GCT 0 1 8.061
195654380 GT-AG 0 0.0004657316981083 127 rna-XM_010536438.2 34724206 2 4258364 4258490 Tarenaya hassleriana 28532 GAG|GTGACCCTCG...TTCTTCTTGAAG/TCTTGTTTCAAA...TTCAG|GCT 0 1 70.408
195654381 GT-AG 0 1.000000099473604e-05 89 rna-XM_010536438.2 34724206 3 4258613 4258701 Tarenaya hassleriana 28532 AAG|GTGTGAGAAG...TTTTTTTTATAA/TTTTTTTTTATA...TGCAG|TGA 2 1 74.558
195654382 GT-AG 0 1.000000099473604e-05 71 rna-XM_010536438.2 34724206 4 4258844 4258914 Tarenaya hassleriana 28532 ACT|GTAAGAAGGC...CTCTCCTCAAAC/AGCCTTCTCACT...TTCAG|TTT 0 1 79.388
195654383 GT-AG 0 1.000000099473604e-05 124 rna-XM_010536438.2 34724206 5 4259140 4259263 Tarenaya hassleriana 28532 AAG|GTTTGTATCG...AATTTCCCAACA/ATGTATCTGATA...TTTAG|GTG 0 1 87.041
195654384 GT-AG 0 1.000000099473604e-05 172 rna-XM_010536438.2 34724206 6 4259339 4259510 Tarenaya hassleriana 28532 ATG|GTGAGGTTTC...AGTTTTCTATTT/TTCTATTTGAGA...TGCAG|GTG 0 1 89.592
195654385 GT-AG 0 1.000000099473604e-05 357 rna-XM_010536438.2 34724206 7 4259613 4259969 Tarenaya hassleriana 28532 AAG|GTAAAACCGT...ACATTTTTACTG/CTGTTACTCACC...AACAG|ATT 0 1 93.061

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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]);