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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)

6 rows where transcript_id = 6831580

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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
35540519 GT-AG 0 1.000000099473604e-05 7444 rna-XM_009698581.1 6831580 1 42244 49687 Cariama cristata 54380 AAG|GTAAGTCAGC...GTTTTTTTAATT/GTTTTTTTAATT...TGAAG|TCA 1 1 17.612
35540520 GT-AG 0 4.2226152374955005e-05 3564 rna-XM_009698581.1 6831580 2 49868 53431 Cariama cristata 54380 AAG|GTTTAGTACA...CTCTTCTTAATT/CTCTTCTTAATT...TGCAG|GTT 1 1 30.877
35540521 GT-AG 0 1.000000099473604e-05 14652 rna-XM_009698581.1 6831580 3 53621 68272 Cariama cristata 54380 AAG|GTAAATGTCT...TTCTCCTTTTCT/TCTTTGTTTATT...ACAAG|TTT 1 1 44.805
35540522 GT-AG 0 1.000000099473604e-05 465 rna-XM_009698581.1 6831580 4 68465 68929 Cariama cristata 54380 CAG|GTAAGGGAGC...TCTGCCTTTTTG/ATGGTAATAACC...TACAG|AAC 1 1 58.954
35540523 GT-AG 0 1.000000099473604e-05 1659 rna-XM_009698581.1 6831580 5 69075 70733 Cariama cristata 54380 AAG|GTTTGTACTG...CTCTCTGTGATA/GTGCTTCTGACA...CATAG|AGG 2 1 69.639
35540524 GT-AG 0 1.000000099473604e-05 1196 rna-XM_009698581.1 6831580 6 71117 72312 Cariama cristata 54380 ATG|GTGAGTCTTG...TATTTCTTTTTT/ATTACAATCAGC...CCTAG|AGA 1 1 97.863

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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]);
Powered by Datasette · Queries took 24.386ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)