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 = 5460274

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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
28028490 GT-AG 0 2.144447044615602e-05 3738 rna-XM_010132434.1 5460274 1 4593 8330 Buceros rhinoceros 175835 ACA|GTAAGTACTC...TTCTCCTTCCCT/GTGTTTCTAACG...CAAAG|GCG 2 1 3.909
28028491 GT-AG 0 1.3084254903995364e-05 11453 rna-XM_010132434.1 5460274 2 8442 19894 Buceros rhinoceros 175835 CAT|GTAAGTATTC...TTTTCTTTTTCT/CTTTTTCTGACT...TCTAG|GCG 2 1 15.329
28028492 GT-AG 0 1.000000099473604e-05 1555 rna-XM_010132434.1 5460274 3 19917 21471 Buceros rhinoceros 175835 GAG|GTAAGACTGT...TGCGCTTTAATC/CCCTTTCTAATT...TGCAG|CAA 0 1 17.593
28028493 GT-AG 0 1.000000099473604e-05 1216 rna-XM_010132434.1 5460274 4 21511 22726 Buceros rhinoceros 175835 GAG|GTACTACTAT...TGGTCATTACTG/TTTGTGTTCAGT...GACAG|GAG 0 1 21.605
28028494 GT-AG 0 0.0104856024518413 832 rna-XM_010132434.1 5460274 5 22801 23632 Buceros rhinoceros 175835 TGG|GTATATTTTC...TGCGTGTTACAG/GTGCGTGTTACA...GCCAG|GTA 2 1 29.218
28028495 GT-AG 0 1.4522236723796125e-05 5285 rna-XM_010132434.1 5460274 6 23766 29050 Buceros rhinoceros 175835 GAG|GTAAGTATCT...TGTCTTTTAACA/TTTCTATTTATT...AACAG|TGG 0 1 42.901

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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]);