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 = 34828642

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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
196137734 GT-AG 0 1.000000099473604e-05 91 rna-XM_025022670.1 34828642 3 9310 9400 Temnothorax curvispinosus 300111 AGG|GTTGAACATA...GATATCTTATAG/TGATATCTTATA...TGTAG|AGG 1 1 29.397
196137735 GT-AG 0 1.000000099473604e-05 82 rna-XM_025022670.1 34828642 4 9653 9734 Temnothorax curvispinosus 300111 TTG|GTAATGAAGA...ACATTCTTATAC/AACATTCTTATA...AATAG|GTG 1 1 44.735
196137736 GT-AG 0 2.570856607944356e-05 136 rna-XM_025022670.1 34828642 5 10098 10233 Temnothorax curvispinosus 300111 CTG|GTAATTTATT...TATTATTTAATA/TAATAACTGATT...TCCAG|GTG 1 1 66.829
196137737 GT-AG 0 0.0003906806633635 108 rna-XM_025022670.1 34828642 6 10453 10560 Temnothorax curvispinosus 300111 TGG|GTAAACATCT...ATAGTCTTAATG/AATTTTCTGATA...TTTAG|GCG 1 1 80.158
196137738 GT-AG 0 1.3570481714737752e-05 75 rna-XM_025022670.1 34828642 7 10788 10862 Temnothorax curvispinosus 300111 CCT|GTAAGTGTAT...ATAATTTTGAAC/ATAATTTTGAAC...TTCAG|TGG 0 1 93.974
196137739 GT-AG 0 1.000000099473604e-05 83 rna-XM_025022670.1 34828642 1 8289 8371 Temnothorax curvispinosus 300111 CAC|GTAAAAAGAT...AACTTCTTATCT/CAACTTCTTATC...TGTAG|ATT   0 3.287
196137740 GT-AG 0 0.0012996397694869 264 rna-XM_025022670.1 34828642 2 8539 8802 Temnothorax curvispinosus 300111 TTG|GTAACCCAAC...TATTATTTAAAA/GCTAATTTAATT...TCTAG|GGT   0 13.451

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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]);