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)

9 rows where transcript_id = 25413738

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
140208337 GT-AG 0 1.000000099473604e-05 88 rna-XM_015832611.2 25413738 1 30259465 30259552 Oryza brachyantha 4533 CAG|GTCAGTGAAA...AACCCTTTGATC/TTTGCATTTATT...TCCAG|GGC 1 1 19.137
140208338 GT-AG 0 1.345703608671566e-05 277 rna-XM_015832611.2 25413738 2 30257740 30258016 Oryza brachyantha 4533 AAG|GTACAGTACA...TAATTCATAATT/ATGAAATTAATT...TGCAG|GAA 0 1 52.562
140208339 GT-AG 0 1.000000099473604e-05 353 rna-XM_015832611.2 25413738 3 30257300 30257652 Oryza brachyantha 4533 CTG|GTAAGGTCTC...TACGTCCTAACA/TACGTCCTAACA...TATAG|GTC 0 1 54.571
140208340 GT-AG 0 1.000000099473604e-05 83 rna-XM_015832611.2 25413738 4 30256632 30256714 Oryza brachyantha 4533 AGG|GTGAGCCAAC...TGCCCCTTAATT/TCAGTTCTTACA...TGTAG|GCT 0 1 68.075
140208341 GT-AG 0 1.802598789875353e-05 76 rna-XM_015832611.2 25413738 5 30256391 30256466 Oryza brachyantha 4533 CAG|GTGCACCTTC...CTTTTCTAAAAT/AATTTGTTAAAT...TGTAG|AGC 0 1 71.884
140208342 GT-AG 0 1.000000099473604e-05 253 rna-XM_015832611.2 25413738 6 30255843 30256095 Oryza brachyantha 4533 CAA|GTAAGTGTTA...CCATTTTTGTTT/CTGATAATCACA...TTTAG|GCC 1 1 78.693
140208343 GT-AG 0 1.6034935219534545e-05 146 rna-XM_015832611.2 25413738 7 30255176 30255321 Oryza brachyantha 4533 GAG|GTAAACGAGC...CTTCCCTTATCA/GATATTTTGATC...TTTAG|GTT 0 1 90.72
140208344 GT-AG 0 1.000000099473604e-05 99 rna-XM_015832611.2 25413738 8 30255013 30255111 Oryza brachyantha 4533 CAG|GTATGAAGAA...TGAAGTTTGATG/TCCAAATTCACC...TGCAG|TGG 1 1 92.198
140208345 GT-AG 0 1.000000099473604e-05 113 rna-XM_015832611.2 25413738 9 30254660 30254772 Oryza brachyantha 4533 AAG|GTAAAAGAAA...TCTTTCTTATTG/ATCTTTCTTATT...TGCAG|GTA 1 1 97.738

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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]);