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)

5 rows where transcript_id = 29163175

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Suggested facets: phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
162621489 GT-AG 0 1.000000099473604e-05 938 rna-XM_015815758.1 29163175 1 1259627 1260564 Protobothrops mucrosquamatus 103944 CAG|GTAAGTTGTA...ATCTTTTTAAAC/CTTTTCTTCATC...ATTAG|GGA 1 1 1.001
162621490 GT-AG 0 1.000000099473604e-05 535 rna-XM_015815758.1 29163175 2 1260730 1261264 Protobothrops mucrosquamatus 103944 TTG|GTAGGTGCCA...GTAACTTCAAAT/GATTGTGTCATG...CATAG|GTG 1 1 24.607
162621491 GT-AG 0 1.000000099473604e-05 865 rna-XM_015815758.1 29163175 3 1261396 1262260 Protobothrops mucrosquamatus 103944 CAG|GTCATTATTT...GGTATTTTAAAG/TCTCTTGTAATC...TCTAG|TTT 0 1 43.348
162621492 GT-AG 0 1.000000099473604e-05 1687 rna-XM_015815758.1 29163175 4 1262375 1264061 Protobothrops mucrosquamatus 103944 AAG|GTAGGTGGCC...TGAGTATTAATT/TGAGTATTAATT...TCTAG|AAT 0 1 59.657
162621493 GT-AG 0 1.000000099473604e-05 3382 rna-XM_015815758.1 29163175 5 1264164 1267545 Protobothrops mucrosquamatus 103944 CAG|GTAAGTGGAG...TGACTTTTAGTG/TTCTTGTTTAAT...TTCAG|CAT 0 1 74.249

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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]);