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 = 13210885

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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
70382570 GT-AG 0 2.3517629645569545e-05 3055 rna-XM_027899573.1 13210885 1 3459032 3462086 Empidonax traillii 164674 CAA|GTAAGTTAAA...TACATTTTAATA/TTTCTTTTTACA...TTTAG|AGC 2 1 4.305
70382571 GT-AG 0 1.000000099473604e-05 4860 rna-XM_027899573.1 13210885 2 3462231 3467090 Empidonax traillii 164674 AAG|GTGAGAATAT...TGTTTTTTATTG/GTGTTTTTTATT...CGCAG|AAA 2 1 22.017
70382572 GT-AG 0 1.000000099473604e-05 1356 rna-XM_027899573.1 13210885 3 3467167 3468522 Empidonax traillii 164674 CAG|GTGCTGTGCT...TATCTCTTAACA/TATCTCTTAACA...AGCAG|GAT 0 1 31.365
70382573 GT-AG 0 1.000000099473604e-05 955 rna-XM_027899573.1 13210885 4 3468632 3469586 Empidonax traillii 164674 GTG|GTAAGCAAGA...ATGCCTGTGACT/GGGTTTTTCAGC...ACCAG|GTT 1 1 44.772
70382574 GT-AG 0 1.000000099473604e-05 2244 rna-XM_027899573.1 13210885 5 3469661 3471904 Empidonax traillii 164674 ACG|GTAATATTTT...CTGCATTTAAAA/CTGCATTTAAAA...CCCAG|GTA 0 1 53.875
70382575 GT-AG 0 0.0012641955153232 1521 rna-XM_027899573.1 13210885 6 3472010 3473530 Empidonax traillii 164674 TCT|GTAAGTTTTG...CAAGTGTTAACT/CAAGTGTTAACT...TGTAG|ATT 0 1 66.79

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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]);