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 = 29163137

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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
162621188 GT-AG 0 1.651173901145826 9320 rna-XM_015809912.1 29163137 2 332594 341913 Protobothrops mucrosquamatus 103944 AT|GTGAGTGAAA...ATTGCATTGATA/AACATGTTCATA...TCTAG|GAT 2 1 2.259
162621189 GT-AG 0 1.000000099473604e-05 3317 rna-XM_015809912.1 29163137 3 342048 345364 Protobothrops mucrosquamatus 103944 CTA|GTAAGGCATA...ACATTTTTGACA/ACATTTTTGACA...TACAG|TCT 1 1 16.016
162621190 GT-AG 0 1.000000099473604e-05 1712 rna-XM_015809912.1 29163137 4 345479 347190 Protobothrops mucrosquamatus 103944 GAG|GTGAGAAATG...AAGGTGTTAATT/AAGGTGTTAATT...TTTAG|TGA 1 1 27.721
162621191 GT-AG 0 1.3257046241896256e-05 488 rna-XM_015809912.1 29163137 5 347353 347840 Protobothrops mucrosquamatus 103944 AAG|GTAATTTTAG...GTTTTATTAATT/GTTTTATTAATT...TGTAG|GAG 1 1 44.353
162621192 GT-AG 0 0.0001248108145288 2412 rna-XM_015809912.1 29163137 6 348047 350458 Protobothrops mucrosquamatus 103944 GAG|GTATAAATGA...TTTTTCTTTTCA/TTTCTTTTCACT...TATAG|ATG 0 1 65.503
162621193 GT-AG 0 1.000000099473604e-05 5323 rna-XM_015809912.1 29163137 7 350628 355950 Protobothrops mucrosquamatus 103944 CAG|GTAAGCAGAA...ACTTTCTTATCT/CCTAGTTTCACT...AAAAG|GTG 1 1 82.854
162621235 GT-AG 0 1.000000099473604e-05 1640 rna-XM_015809912.1 29163137 1 330847 332486 Protobothrops mucrosquamatus 103944 CGA|GTAAGGGAGG...ACACGATTAACT/ACACGATTAACT...ATCAG|GTG   0 2.053

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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]);