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 = 10007595

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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
55033753 GT-AG 0 0.001669374704345 526 rna-XM_008439037.2 10007595 1 1802605 1803130 Cucumis melo 3656 CAG|GTATTTAATG...TGCTCTTTATTC/GTGCTCTTTATT...CTCAG|GGT 0 1 8.575
55033754 GT-AG 0 0.1048862470084394 756 rna-XM_008439037.2 10007595 2 1801616 1802371 Cucumis melo 3656 ATG|GTAGCTTCTT...ATCTTTTTAACT/ATCTTTTTAACT...TTCAG|GGT 2 1 18.369
55033755 GT-AG 0 1.1407955271779524e-05 390 rna-XM_008439037.2 10007595 3 1800544 1800933 Cucumis melo 3656 CAG|GTTCATTTCT...GTTACTTTTTTT/TTCTAGTTCATG...GGCAG|AGG 0 1 47.037
55033756 GT-AG 0 1.000000099473604e-05 480 rna-XM_008439037.2 10007595 4 1799733 1800212 Cucumis melo 3656 AAG|GTGACTGACT...ATATTTTTACTA/AATATTTTTACT...TGCAG|GTG 1 1 60.95
55033757 GT-AG 0 1.000000099473604e-05 107 rna-XM_008439037.2 10007595 5 1799525 1799631 Cucumis melo 3656 CAG|GTTTGTTGAA...CTTCTCTCATTT/ACTTCTCTCATT...TATAG|GTG 0 1 65.195
55033758 GT-AG 0 1.000000099473604e-05 325 rna-XM_008439037.2 10007595 6 1799005 1799329 Cucumis melo 3656 AAG|GTATGGAGAT...CCATTGTTATCA/CAACTGCTGATA...TACAG|GCA 0 1 73.392

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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]);