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 = 10944838

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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
60661721 GT-AG 0 0.0053553830776613 1032 rna-XM_020848377.2 10944838 1 208617 209648 Dendrobium catenatum 906689 AAG|GTTTCGCCTC...TTTTCCTTACAT/CTTTTCCTTACA...ATCAG|TTT 0 1 4.102
60661722 GT-AG 0 0.0187977515974759 3409 rna-XM_020848377.2 10944838 2 209991 213399 Dendrobium catenatum 906689 AAA|GTATGTTATT...GACTTCTTACAT/ACTTATTTGACT...TTCAG|GTT 0 1 13.454
60661723 GT-AG 0 0.0002913555172124 6333 rna-XM_020848377.2 10944838 3 213660 219992 Dendrobium catenatum 906689 CCG|GTAAGTTTTG...ATTTTTTTAAAC/ATTTTTTTAAAC...CACAG|GTT 2 1 20.563
60661724 GT-AG 0 0.0910547514610688 1382 rna-XM_020848377.2 10944838 4 220135 221516 Dendrobium catenatum 906689 GAA|GTATGCCCCT...TAAACCTTGAAA/TTATGATTTATG...CCCAG|GTA 0 1 24.446
60661725 GT-AG 0 1.000000099473604e-05 81 rna-XM_020848377.2 10944838 5 221886 221966 Dendrobium catenatum 906689 GAG|GTCTGTGGGT...ATATTTTTATTT/AATATTTTTATT...AATAG|GAT 0 1 34.537
60661726 GT-AG 0 7.399638470671471e-05 760 rna-XM_020848377.2 10944838 6 222099 222858 Dendrobium catenatum 906689 CAG|GTACTGTGCA...GTTTTTTTATTT/TGTTTTTTTATT...ATCAG|GTA 0 1 38.146
60661727 GT-AG 0 0.0134798410785612 85 rna-XM_020848377.2 10944838 7 222988 223072 Dendrobium catenatum 906689 CAG|GTAACCAATG...TATTCCTGAATT/CTATTCCTGAAT...ATCAG|ATC 0 1 41.674

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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]);