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 = 38778405

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
214503982 GT-AG 0 1.000000099473604e-05 119 rna-gnl|WGS:LFYR|ZOSMA_1G00340_mrna 38778405 2 414275 414393 Zostera marina 29655 GAG|GTGCCAATAT...GATTTCTTTTTT/ATTGAATTTAAA...TTCAG|AAT 0 1 1.272
214503983 GT-AG 0 1.000000099473604e-05 87 rna-gnl|WGS:LFYR|ZOSMA_1G00340_mrna 38778405 3 415157 415243 Zostera marina 29655 AAG|GTAAGAATCA...ATATTATTACTA/TTATTACTAAAG...TTCAG|GTA 1 1 21.489
214503984 GT-AG 0 1.000000099473604e-05 70 rna-gnl|WGS:LFYR|ZOSMA_1G00340_mrna 38778405 4 417111 417180 Zostera marina 29655 TAG|GTGATTATTA...TGTGTATTAACT/TTAACTTTCATT...CACAG|AGG 2 1 70.959
214503985 GT-AG 0 1.000000099473604e-05 96 rna-gnl|WGS:LFYR|ZOSMA_1G00340_mrna 38778405 5 417249 417344 Zostera marina 29655 CTA|GTAAGAAGCC...TGGTCCTGATTT/CTGGTCCTGATT...CTCAG|AAC 1 1 72.761
214503986 GT-AG 0 4.633267173909021e-05 117 rna-gnl|WGS:LFYR|ZOSMA_1G00340_mrna 38778405 6 417576 417692 Zostera marina 29655 GAG|GTATTAGTCC...TGATCCTTCAAT/TGATCCTTCAAT...CACAG|GTC 1 1 78.882
214505464 GT-AG 0 1.000000099473604e-05 2671 rna-gnl|WGS:LFYR|ZOSMA_1G00340_mrna 38778405 1 411501 414171 Zostera marina 29655 TAG|GTAAAATTCT...GTAATATTGATT/GTAATATTGATT...TCCAG|ATC   0 0.636

Advanced export

JSON shape: default, array, newline-delimited, object

CSV options: 

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]);