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)

7 rows where transcript_id = 18602146

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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
99339999 GT-AG 0 1.000000099473604e-05 105 rna-XM_012223744.3 18602146 1 1325118 1325222 Jatropha curcas 180498 AAG|GTGAATATAG...TGGTGCTTGATT/ATTGTGTTAATT...GATAG|GAA 0 1 42.441
99340000 GT-AG 0 1.000000099473604e-05 92 rna-XM_012223744.3 18602146 2 1325361 1325452 Jatropha curcas 180498 CAG|GTTGGAGTTT...TGAATGTTGATC/TGAATGTTGATC...TGCAG|CTT 0 1 47.408
99340001 GT-AG 0 0.0001028323387508 98 rna-XM_012223744.3 18602146 3 1325558 1325655 Jatropha curcas 180498 AAG|GTATGGTGTA...TTATCTGTAACA/GTTAAACTAATT...TTCAG|GCA 0 1 51.188
99340002 GT-AG 0 1.5246870814639496e-05 425 rna-XM_012223744.3 18602146 4 1325842 1326266 Jatropha curcas 180498 CAG|GTAGTTTGGT...TCATGCTTGATT/GCTTGATTTACT...TGAAG|GCC 0 1 57.883
99340003 GT-AG 0 0.0004832661681342 285 rna-XM_012223744.3 18602146 5 1326448 1326732 Jatropha curcas 180498 ATG|GTATGTATGC...AAAAACTTGATT/AAAAACTTGATT...AACAG|GGG 1 1 64.399
99340004 GT-AG 0 1.000000099473604e-05 528 rna-XM_012223744.3 18602146 6 1326966 1327493 Jatropha curcas 180498 AGG|GTAAGATCAT...ATTTTCTTTCTC/CTGTTGCTAAAA...CACAG|GCT 0 1 72.786
99340005 GT-AG 0 1.000000099473604e-05 240 rna-XM_012223744.3 18602146 7 1327658 1327897 Jatropha curcas 180498 CAG|GTAGGCGCCA...TTTGTCATATTT/TCTTTTGTCATA...CTTAG|GTA 2 1 78.69

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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]);