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 = 24462891

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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
133657957 GT-AG 0 4.766987979693896e-05 133379 rna-XM_004391487.1 24462891 1 2896402 3029780 Odobenus rosmarus 9707 TGG|GTAAGTTGGA...TTATCCTTATAC/TTTATCCTTATA...TTCAG|TTT 0 1 10.037
133657958 GT-AG 0 1.000000099473604e-05 19820 rna-XM_004391487.1 24462891 2 3029832 3049651 Odobenus rosmarus 9707 AAA|GTAAGTTGAA...GTTTGCTTCTCT/TGCCCCTGCATC...CCCAG|GGA 0 1 16.357
133657959 GT-AG 0 1.000000099473604e-05 4229 rna-XM_004391487.1 24462891 3 3049799 3054027 Odobenus rosmarus 9707 TTC|GTGAGTATCC...GCCCCTTTAACT/CTATATATGATC...CTTAG|TTT 0 1 34.572
133657960 GT-AG 0 6.396418488437555e-05 2269 rna-XM_004391487.1 24462891 4 3054199 3056467 Odobenus rosmarus 9707 TAT|GTAAGTTTAA...ATGTTCTAATTC/GATGTTCTAATT...TCTAG|TGG 0 1 55.762
133657961 GT-AG 0 1.000000099473604e-05 1886 rna-XM_004391487.1 24462891 5 3056594 3058479 Odobenus rosmarus 9707 GCA|GTAAGTGAAT...GTTTCCTTTCTC/GCGATTTTCACC...ACCAG|GAA 0 1 71.375
133657962 GT-AG 0 1.000000099473604e-05 96 rna-XM_004391487.1 24462891 6 3058528 3058623 Odobenus rosmarus 9707 CCA|GTAAGTGGAA...GAGCTTTTGAAC/GAGCTTTTGAAC...TGAAG|GAA 0 1 77.323
133657963 GT-AG 0 1.000000099473604e-05 2230 rna-XM_004391487.1 24462891 7 3058741 3060970 Odobenus rosmarus 9707 CAG|GTAAGACAAG...TTTTCCTTCCTT/TTGAGTTTCACT...CTCAG|ATT 0 1 91.822

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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]);