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 = 15088640

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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
81573588 GT-AG 0 1.000000099473604e-05 177 rna-XM_009815926.1 15088640 1 9149 9325 Gavia stellata 37040 CAG|GTTTGTCCAG...GTATGCTCATTC/TGTATGCTCATT...TTCAG|GTT 0 1 4.196
81573589 GT-AG 0 1.000000099473604e-05 2867 rna-XM_009815926.1 15088640 2 9423 12289 Gavia stellata 37040 TAT|GTGAGTATTC...TTCTCTTTGAAA/TTCTCTTTGAAA...GACAG|TGG 1 1 15.501
81573590 GT-AG 0 1.000000099473604e-05 1914 rna-XM_009815926.1 15088640 3 12442 14355 Gavia stellata 37040 CAG|GTAAAAAACC...CTTACTTTAAAC/TTTAAACTCAGT...CGTAG|GTT 0 1 33.217
81573591 GT-AG 0 1.874884224844488 760 rna-XM_009815926.1 15088640 4 14525 15284 Gavia stellata 37040 AAG|GTATCTTTCT...CTAGCTTTTCTT/CCCCCACTAAAT...TTCAG|ATA 1 1 52.914
81573592 GT-AG 0 0.0001236770397019 1504 rna-XM_009815926.1 15088640 5 15416 16919 Gavia stellata 37040 AAG|GTAGTTTTGT...TTATTTTTACCT/TTTATTTTTACC...TGTAG|GTG 0 1 68.182
81573593 GT-AG 0 1.000000099473604e-05 1813 rna-XM_009815926.1 15088640 6 17084 18896 Gavia stellata 37040 CAA|GTAAGTAACT...GTAATCTTATCT/CATTTTCTAATG...TTCAG|AGG 2 1 87.296

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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]);