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 = 29320842

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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
163356821 GT-AG 0 1.000000099473604e-05 101 rna-XM_021962720.1 29320842 1 384704 384804 Prunus avium 42229 AAG|GTAATACATG...TTCTTCTTATAA/CTTCTTCTTATA...TGCAG|AAA 0 1 1.675
163356822 GT-AG 0 1.000000099473604e-05 92 rna-XM_021962720.1 29320842 2 385295 385386 Prunus avium 42229 CTG|GTACTAGAAT...ATTTCAATAATG/AATTGCTTCATG...TGCAG|TTT 1 1 22.723
163356823 GT-AG 0 0.001167886478457 1574 rna-XM_021962720.1 29320842 3 385441 387014 Prunus avium 42229 GAT|GTAAGTTCTT...GATTTCTTACTT/TGATTTCTTACT...TGCAG|ATG 1 1 25.043
163356824 GT-AG 0 1.000000099473604e-05 80 rna-XM_021962720.1 29320842 4 387276 387355 Prunus avium 42229 CAG|GTACAAGAGT...CTTTCCTTCTCT/CCTTCTCTGACA...TGAAG|GCT 1 1 36.254
163356825 GT-AG 0 0.0018175554430157 83 rna-XM_021962720.1 29320842 5 387409 387491 Prunus avium 42229 AAG|GTATTCAAAC...TAATCTTTCACA/TCTGTACTAACT...TGCAG|ATT 0 1 38.531
163356826 GT-AG 0 1.5775108287958492e-05 73 rna-XM_021962720.1 29320842 6 387616 387688 Prunus avium 42229 CTG|GTAGGTGTCT...GCAGTTTTAACT/ATTAAGCTAATT...CACAG|AGA 1 1 43.857
163356827 GT-AG 0 0.0002080401174141 189 rna-XM_021962720.1 29320842 7 387944 388132 Prunus avium 42229 CAG|GTACAGTTTA...TTACCTTTATTA/AAGTTTTTTACC...TATAG|GTT 1 1 54.811

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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]);