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 = 24462880

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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
133657893 GT-AG 0 0.002123472888962 5190 rna-XM_004391538.2 24462880 1 12976599 12981788 Odobenus rosmarus 9707 CAG|GTATTTCCTG...TTTTCCTTTTTC/ATGGCATTTATG...TCCAG|AAA 2 1 10.161
133657894 GT-AG 0 1.000000099473604e-05 2253 rna-XM_004391538.2 24462880 2 12974106 12976358 Odobenus rosmarus 9707 CAG|GTGAGCAAAT...TTATTCTTATTT/ATTATTCTTATT...TACAG|TGA 2 1 32.953
133657895 GT-AG 0 1.000000099473604e-05 2799 rna-XM_004391538.2 24462880 3 12971211 12974009 Odobenus rosmarus 9707 CAG|GTAGGTACTG...TTGATTTTATAT/ATTGATTTTATA...CCCAG|AAA 2 1 42.07
133657896 GT-AG 0 1.000000099473604e-05 5186 rna-XM_004391538.2 24462880 4 12965938 12971123 Odobenus rosmarus 9707 CAG|GTAAGAATGA...TTGTTCTAAATC/TTTGTTCTAAAT...TACAG|GTG 2 1 50.332
133657897 GT-AG 0 1.000000099473604e-05 1951 rna-XM_004391538.2 24462880 5 12963875 12965825 Odobenus rosmarus 9707 GGG|GTAAGAAAAG...TTTTTCTTAAAC/CTTTTTCTTAAA...GTTAG|GGG 0 1 60.969
133657898 GT-AG 0 1.000000099473604e-05 1347 rna-XM_004391538.2 24462880 6 12962381 12963727 Odobenus rosmarus 9707 GTG|GTAAGAAATG...TCATTCTTCACT/TTTGTGTTCATT...AATAG|ATA 0 1 74.929
133657899 GT-AG 0 4.350550794967571e-05 1043 rna-XM_004391538.2 24462880 7 12961253 12962295 Odobenus rosmarus 9707 CAG|GTAAACTGAC...TTTTTCTTGGTG/AAATGAATTACT...AACAG|GTG 1 1 83.001

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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]);