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 = 23220210

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
126296562 GT-AG 0 0.0010984721068522 177 rna-gnl|WGS:JACVTC|H8356DRAFT_mRNA1021730 23220210 1 2433377 2433553 Neocallimastix sp. jgi-2020a 2767002 AGT|GTAAATATTC...TAATTTTTATCT/TATGTATTAATT...CTCAG|AGG 2 1 15.167
126296563 GT-AG 0 1.55840425203422e-05 157 rna-gnl|WGS:JACVTC|H8356DRAFT_mRNA1021730 23220210 2 2433024 2433180 Neocallimastix sp. jgi-2020a 2767002 CAA|GTAAATAACA...TTATTTTTAATA/TTATTTTTAATA...TATAG|GGT 0 1 21.923
126296564 GT-AG 0 1.000000099473604e-05 103 rna-gnl|WGS:JACVTC|H8356DRAFT_mRNA1021730 23220210 3 2432603 2432705 Neocallimastix sp. jgi-2020a 2767002 ATA|GTAAGATAAT...ATTTCATTAATA/TAATATTTCATT...TATAG|ATT 0 1 32.885
126296565 GT-AG 0 6.698856627113787e-05 137 rna-gnl|WGS:JACVTC|H8356DRAFT_mRNA1021730 23220210 4 2432399 2432535 Neocallimastix sp. jgi-2020a 2767002 TTG|GTAAGCAATA...TTATTTTTAAAA/TATTATTTAATA...AATAG|TTT 1 1 35.195
126296566 GT-AG 0 1.000000099473604e-05 132 rna-gnl|WGS:JACVTC|H8356DRAFT_mRNA1021730 23220210 5 2432094 2432225 Neocallimastix sp. jgi-2020a 2767002 AAG|GTAATTTAAT...AAAATTATAAAA/AATAATGTAATT...TATAG|AAA 0 1 41.158
126296567 GT-AG 0 1.000000099473604e-05 177 rna-gnl|WGS:JACVTC|H8356DRAFT_mRNA1021730 23220210 6 2431835 2432011 Neocallimastix sp. jgi-2020a 2767002 CAG|GTAAATATTT...TATTTTATAATT/AATATATTAATA...ATTAG|CTG 1 1 43.985

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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]);