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 = 24215960

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
132129448 GT-AG 0 2.799844667317072e-05 315 rna-XM_031623062.1 24215960 1 26740476 26740790 Nymphaea colorata 210225 GAG|GTTTGATTTC...TTGTTCTTCTCT/GCGCGCTTCATT...TCTAG|GGT 0 1 1.488
132129449 GT-AG 0 1.000000099473604e-05 113 rna-XM_031623062.1 24215960 2 26738733 26738845 Nymphaea colorata 210225 CTG|GTAGGTCAAA...TATTCCTTCTCC/TGTGGTTTCATA...AACAG|CTG 1 1 38.25
132129450 GT-AG 0 1.000000099473604e-05 530 rna-XM_031623062.1 24215960 3 26737842 26738371 Nymphaea colorata 210225 TGA|GTGAGTCACT...CATTCCGTAGCT/TTTTTGGTGAAT...TGCAG|ATT 2 1 46.392
132129451 GT-AG 0 1.000000099473604e-05 1379 rna-XM_031623062.1 24215960 4 26736378 26737756 Nymphaea colorata 210225 CAG|GTGCAGTTGT...CTGACATTAATC/CTGACATTAATC...TTCAG|ATA 0 1 48.309
132129452 GT-AG 0 0.1222937689121314 1451 rna-XM_031623062.1 24215960 5 26734870 26736320 Nymphaea colorata 210225 AAG|GTATTCTATC...TTATTTTTAGTG/TATGAACTGATT...TGCAG|GCA 0 1 49.594
132129453 GT-AG 0 1.000000099473604e-05 92 rna-XM_031623062.1 24215960 6 26734718 26734809 Nymphaea colorata 210225 CAG|GTGATTCAAT...TTTGTTTTGATT/TTTGTTTTGATT...TTCAG|GGA 0 1 50.947
132129454 GT-AG 0 1.000000099473604e-05 76 rna-XM_031623062.1 24215960 7 26734423 26734498 Nymphaea colorata 210225 GAG|GTTGGAAATC...ATCTCATTATAT/ATATATCTCATT...TGCAG|GAT 0 1 55.886
132129455 GC-AG 0 1.000000099473604e-05 1160 rna-XM_031623062.1 24215960 8 26731640 26732799 Nymphaea colorata 210225 AAG|GCATGTCCTT...CATGTCTTATCT/TCATGTCTTATC...TGCAG|GAA 0 1 92.49

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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]);