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 = 195

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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
821 GT-AG 0 1.000000099473604e-05 2812 rna-XM_027486895.1 195 1 6156219 6159030 Abrus precatorius 3816 AAG|GTAAAAAGTC...ATCTTCATGACT/TTCAGGTTAACT...TACAG|TGG 0 1 1.22
822 GT-AG 0 0.0011326404934629 187 rna-XM_027486895.1 195 2 6153292 6153478 Abrus precatorius 3816 GAG|GTACACTACA...AATTATTTATCT/CTTATATTTATA...TTCAG|GAT 1 1 59.854
823 GT-AG 0 0.1301427706585897 475 rna-XM_027486895.1 195 3 6152611 6153085 Abrus precatorius 3816 ACT|GTATATTCCT...CATCTCTGAATC/CTAAATCTGATC...TACAG|GTT 0 1 64.263
824 GT-AG 0 7.49242606212677e-05 311 rna-XM_027486895.1 195 4 6152068 6152378 Abrus precatorius 3816 AAG|GTAAACTCTA...TGCATCTTCATT/TGCATCTTCATT...TATAG|ATG 1 1 69.227
825 GT-AG 0 1.000000099473604e-05 190 rna-XM_027486895.1 195 5 6151699 6151888 Abrus precatorius 3816 CAA|GTGAGTTATG...TACTCGTTAATT/TTAATTCTGATT...AATAG|AGG 0 1 73.058
826 GT-AG 0 0.0002914303737811 108 rna-XM_027486895.1 195 6 6151402 6151509 Abrus precatorius 3816 GAG|GTATATGCTT...AGATTATTGATT/AGATTATTGATT...TAAAG|TGT 0 1 77.103
1969 GT-AG 0 1.000000099473604e-05 76 rna-XM_027486895.1 195 7 6150850 6150925 Abrus precatorius 3816 CAG|GTCAGTGCTA...CAACTTTTAGAA/TCAACTTTTAGA...TGCAG|ATA   0 87.289

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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]);