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 = 15495785

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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
83762573 GT-AG 0 2.6572810862936894e-05 1006 rna-XM_006573096.4 15495785 1 9070425 9071430 Glycine max 3847 CCT|GTAAGTTCCC...GCTTTGTGGACT/TGTGGACTGATA...TACAG|CAT 0 1 4.696
83762574 GT-AG 0 0.0016604518270541 10897 rna-XM_006573096.4 15495785 2 9058483 9069379 Glycine max 3847 ATG|GTATGTGTTT...ATTTTCTTTATG/ATTTTCTTTATG...TACAG|ACA 1 1 26.508
83762575 GT-AG 0 0.0188835812790759 152 rna-XM_006573096.4 15495785 3 9058236 9058387 Glycine max 3847 GTG|GTATGTTATT...TCTCCTTTAGTA/CCTTTAGTAACA...TTTAG|ATT 0 1 28.491
83762576 GT-AG 0 1.000000099473604e-05 1439 rna-XM_006573096.4 15495785 4 9056609 9058047 Glycine max 3847 TAG|GTAAAGTTTG...CATCTTTTGACG/TTTTTCCTCATT...TGTAG|GAT 2 1 32.415
83762577 GT-AG 0 0.0001483085542546 84 rna-XM_006573096.4 15495785 5 9056419 9056502 Glycine max 3847 GAG|GTAACTGGAT...GATTTTTTATTT/TGATTTTTTATT...TCCAG|AAG 0 1 34.627
83762578 GT-AG 0 1.000000099473604e-05 133 rna-XM_006573096.4 15495785 6 9056025 9056157 Glycine max 3847 GAG|GTAAAACATA...ACTTCCTTGTCA/GTCAAATTCATT...TGCAG|AAA 0 1 40.075
83762579 GT-AG 0 1.000000099473604e-05 94 rna-XM_006573096.4 15495785 7 9055745 9055838 Glycine max 3847 AAG|GTGAGTGGTA...TTTCATTTGATT/TAATGTTTCATT...AAAAG|GTG 0 1 43.957
83762580 GT-AG 0 1.000000099473604e-05 862 rna-XM_006573096.4 15495785 8 9052603 9053464 Glycine max 3847 GAG|GTAAAAAAAA...TCAACATTAATG/TCAACATTAATG...TGCAG|GAT 0 1 91.547
83762581 GT-AG 0 0.000549034692468 428 rna-XM_006573096.4 15495785 9 9051965 9052392 Glycine max 3847 GAG|GTAACCAAAG...ATAGCCATAATG/ACATTACTAATG...TGCAG|GGT 0 1 95.93

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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]);