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 = 38490454

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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
213116543 GT-AG 0 1.000000099473604e-05 1143 rna-XM_008653743.4 38490454 1 20453834 20454976 Zea mays 4577 CAG|GTAGGGTTCC...GGTCTCTTCCTC/ATATGCTTCACA...TGCAG|GTT 0 1 4.967
213116544 GT-AG 0 0.0033444663805621 513 rna-XM_008653743.4 38490454 2 20455166 20455678 Zea mays 4577 GAG|GTATTTTCCC...TTTTTTTTCATA/TTTTTTTTCATA...TACAG|GTC 0 1 9.637
213116545 GT-AG 0 1.8758375874194568e-05 155 rna-XM_008653743.4 38490454 3 20455772 20455926 Zea mays 4577 GAG|GTGTGTTCTT...TTGTTTCTAATG/TTGTTTCTAATG...ATTAG|ATT 0 1 11.935
213116546 GT-AG 0 1.000000099473604e-05 75 rna-XM_008653743.4 38490454 4 20456110 20456184 Zea mays 4577 GAG|GTGAATTTAC...TGTATCCTGACA/TTTCTATTCATG...CACAG|GTG 0 1 16.457
213116547 GT-AG 0 0.000397790640085 85 rna-XM_008653743.4 38490454 5 20456288 20456372 Zea mays 4577 CTG|GTAATCTATA...CAATGCTTGATT/CAATGCTTGATT...TGCAG|CGG 1 1 19.002
213116548 GT-AG 0 0.0004420641370922 1173 rna-XM_008653743.4 38490454 6 20456559 20457731 Zea mays 4577 AAG|GTAACTATGA...TTTTTTTTGGTT/GGTGTGTTCAGC...TGCAG|GAA 1 1 23.598
213116549 GT-AG 0 1.000000099473604e-05 1469 rna-XM_008653743.4 38490454 7 20460149 20461617 Zea mays 4577 CCT|GTAAGAACCT...ATAGTCTGGACT/TAAGCTGTCAAT...TTCAG|AAG 0 1 83.321
213116550 GT-AG 0 1.000000099473604e-05 268 rna-XM_008653743.4 38490454 8 20462241 20462508 Zea mays 4577 TCG|GTAATACTTG...CATGCGTTGATG/TAAATTCTCATG...TGCAG|CCT 2 1 98.715

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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]);