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 = 12947887

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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
69095230 GT-AG 0 0.0086824588973175 88 rna-XM_010925529.2 12947887 2 22078043 22078130 Elaeis guineensis 51953 GAG|GTATAGTTTT...TGTGTTTTAACT/TGTGTTTTAACT...TTCAG|GAA 0 1 76.923
69095231 GT-AG 0 1.925206740521033e-05 573 rna-XM_010925529.2 12947887 3 22078212 22078784 Elaeis guineensis 51953 CAG|GTTTGATCCT...GTATTCTTAAAA/AGTATTCTTAAA...GGCAG|ATC 0 1 78.927
69095232 GT-AG 0 1.000000099473604e-05 201 rna-XM_010925529.2 12947887 4 22078938 22079138 Elaeis guineensis 51953 CTG|GTGAGCTCTC...ATTGTTTTACTG/TATTGTTTTACT...TTCAG|ACC 0 1 82.711
69095233 GT-AG 0 7.548185796222667e-05 82 rna-XM_010925529.2 12947887 5 22079303 22079384 Elaeis guineensis 51953 CAA|GTAAGCACCT...TTTCCTATAATT/CACTTTCTGATA...AACAG|ATA 2 1 86.767
69095234 GT-AG 0 1.000000099473604e-05 129 rna-XM_010925529.2 12947887 6 22079533 22079661 Elaeis guineensis 51953 AAG|GTAAGTTACT...TTTTTCATAATG/ACTTTTTTCATA...TCTAG|GTA 0 1 90.428
69095235 GT-AG 0 0.0001662675661603 315 rna-XM_010925529.2 12947887 7 22079785 22080099 Elaeis guineensis 51953 AAG|GTAAACTTTT...ATGATATTGATA/TGTATATTCACT...TGCAG|GTG 0 1 93.47
69095236 GT-AG 0 0.285232005751399 483 rna-XM_010925529.2 12947887 8 22080188 22080670 Elaeis guineensis 51953 TAG|GTATGCTTGA...TTTACTTTGATT/TTTACTTTGATT...CGCAG|GAG 1 1 95.647
69105304 GT-AG 0 0.0003494015292856 6209 rna-XM_010925529.2 12947887 1 22068618 22074826 Elaeis guineensis 51953 GTG|GTAATCTCTC...TGTGTCATAACT/CCCTGTCTCATT...TACAG|GAT   0 3.166

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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]);