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 = 32241298

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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
180024110 GT-AG 0 4.492903818104053e-05 6698 rna-XM_035733900.1 32241298 1 558699 565396 Schistosoma haematobium 6185 CAA|GTAAGTATCA...TTTTTTTTATCA/TTTTTTTTTATC...CGTAG|GTA 0 1 34.305
180024111 GT-AG 0 0.009538496377329 625 rna-XM_035733900.1 32241298 2 558067 558691 Schistosoma haematobium 6185 TTA|GTAGCTTGAT...AACTGCTTGTTC/GGGAGCGTGACA...TTCAG|GAT 1 1 34.385
180024112 GT-AG 0 1.000000099473604e-05 899 rna-XM_035733900.1 32241298 3 557016 557914 Schistosoma haematobium 6185 GCA|GTGAGTAGGA...TTTTCTTTAAAA/TTTTATTTTACT...TTTAG|ATT 0 1 36.123
180024113 GT-AG 0 1.000000099473604e-05 1428 rna-XM_035733900.1 32241298 4 555074 556501 Schistosoma haematobium 6185 ACC|GTGAGTGTAT...ATTATTTTACAA/AATTTACTAATG...AATAG|ATT 1 1 42.001
180024114 GT-AG 0 0.0003154761951302 2046 rna-XM_035733900.1 32241298 5 552706 554751 Schistosoma haematobium 6185 CAA|GTAATCAACG...TTCTTTTTAAAT/TTCTTTTTAAAT...TTTAG|TGA 2 1 45.683
180024115 GT-AG 0 1.000000099473604e-05 2300 rna-XM_035733900.1 32241298 6 547448 549747 Schistosoma haematobium 6185 AAG|GTTAGTACTG...TTTTCTTTATTA/TTTTTCTTTATT...TTTAG|ATT 2 1 79.508
180024116 GT-AG 0 0.0112535566797675 3197 rna-XM_035733900.1 32241298 7 543845 547041 Schistosoma haematobium 6185 GAA|GTATGTCTTC...TTCTTCTTCTTC/TAATTTTTCAAT...TACAG|ATT 0 1 84.151
180024117 GT-AG 0 6.070930897660816e-05 1498 rna-XM_035733900.1 32241298 8 541635 543132 Schistosoma haematobium 6185 ACG|GTAATTTCAA...CACCTTTTATTT/TGCTTACTCACC...TTTAG|ACA 1 1 92.293

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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]);