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 = 5530365

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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
28482576 GT-AG 0 1.000000099473604e-05 904 rna-XM_044274295.1 5530365 1 494908921 494909824 Bufo gargarizans 30331 AAG|GTGAGAACAT...CCCCTTTTACTT/TTTGTAGTAATA...TGCAG|GTT 1 1 25.329
28482577 GT-AG 0 1.000000099473604e-05 5088 rna-XM_044274295.1 5530365 2 494903282 494908369 Bufo gargarizans 30331 AAG|GTGAAGTATA...ACGTCCATGATG/ATGATGTTGAGA...TAAAG|TTT 0 1 31.991
28482578 GT-AG 0 4.133261104235904e-05 1985 rna-XM_044274295.1 5530365 3 494901095 494903079 Bufo gargarizans 30331 ATG|GTAAGCCTTC...ACATTTTTATAT/CTATTGCTTATA...TTCAG|GTA 1 1 34.434
28482579 GT-AG 0 1.000000099473604e-05 2536 rna-XM_044274295.1 5530365 4 494898487 494901022 Bufo gargarizans 30331 AAG|GTGAGACAAG...TGATCCCTAATC/TAGTTGTTTATC...TTCAG|CTT 1 1 35.304
28482580 GT-AG 0 0.0009381955832545 21261 rna-XM_044274295.1 5530365 5 494877167 494898427 Bufo gargarizans 30331 ACG|GTACGTATTC...ACCCCTTTAATT/TTCTGTTTCATC...CTCAG|GTG 0 1 36.017
28482581 GT-AG 0 1.000000099473604e-05 777 rna-XM_044274295.1 5530365 6 494876189 494876965 Bufo gargarizans 30331 GTG|GTGAGTATTT...GTAACTTTTATG/CTGTATGTAACT...TTCAG|GCA 0 1 38.448
28482582 GT-AG 0 2.0052259632450895e-05 936 rna-XM_044274295.1 5530365 7 494875159 494876094 Bufo gargarizans 30331 CCA|GTGAGTTTCC...CTGTTCTTAAAT/TTACTTTTCACA...TACAG|AAT 1 1 39.584
28482583 GT-AG 0 1.000000099473604e-05 11047 rna-XM_044274295.1 5530365 8 494859915 494870961 Bufo gargarizans 30331 CAG|GTAAAATACA...TTTTTCTTATTT/ATTTTTCTTATT...CTTAG|GCC 1 1 90.328

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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]);