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)

8 rows where transcript_id = 29402352

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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
163707249 GT-AG 0 0.0073628133041279 536 rna-XM_020564462.1 29402352 1 40268816 40269351 Prunus persica 3760 GAG|GTATGCATCG...TGTGCTTTAGAG/AAAGATTTCATA...ATCAG|GGC 1 1 26.882
163707250 GT-AG 0 1.000000099473604e-05 522 rna-XM_020564462.1 29402352 2 40270221 40270742 Prunus persica 3760 GAG|GTTAGTGTTT...TCTGTATTGATG/TCTGTATTGATG...GTCAG|GTG 0 1 43.616
163707251 GT-AG 0 1.000000099473604e-05 80 rna-XM_020564462.1 29402352 3 40271466 40271545 Prunus persica 3760 AAG|GTACAATACT...TTTTGCTTAAGT/ATAGTACTGACT...ATTAG|ACC 0 1 57.539
163707252 GT-AG 0 0.0004192388781095 212 rna-XM_020564462.1 29402352 4 40271825 40272036 Prunus persica 3760 CCT|GTAAGATTTC...GTTATCTTATCT/TAGTCTCTCACT...CCCAG|GTT 0 1 62.912
163707253 GT-AG 0 0.0045336155755108 153 rna-XM_020564462.1 29402352 5 40272199 40272351 Prunus persica 3760 GCG|GTATGCATAT...TCTTCTTTGTTC/TCTTTGTTCACC...TGTAG|GTC 0 1 66.031
163707254 GT-AG 0 7.298845677181194e-05 97 rna-XM_020564462.1 29402352 6 40273291 40273387 Prunus persica 3760 AAG|GTACTTGTTG...TTATTCTTTTCG/TTAGAATTGATG...GGCAG|TCT 0 1 84.113
163707255 GT-AG 0 0.0003202015490551 499 rna-XM_020564462.1 29402352 7 40273604 40274102 Prunus persica 3760 AAG|GTATAAATTG...CTTTCTCTAACT/CTTTCTCTAACT...GACAG|AAA 0 1 88.273
163707256 GT-AG 0 2.888247426088115e-05 197 rna-XM_020564462.1 29402352 8 40274364 40274560 Prunus persica 3760 CAG|GTTTTTGCCT...GCGACCTTATCT/TGTGGTTTGATT...TGCAG|CAA 0 1 93.299

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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]);