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 = 31341675

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
174594051 GT-AG 0 1.000000099473604e-05 823 rna-NZN594_LOCUS419 31341675 1 2261689 2262511 Rotaria sp. silwood1 2762511 AAA|GTAAAACATT...AAGATTTCGATT/AAGATTTCGATT...TTTAG|GCA 0 1 2.951
174594052 GT-AG 0 0.0059832560925638 58 rna-NZN594_LOCUS419 31341675 2 2262611 2262668 Rotaria sp. silwood1 2762511 AAA|GTATTTATAT...TTATTGTTAAAA/CTAATATTCAAA...AATAG|AGT 0 1 5.734
174594053 GT-AG 0 0.0046609518781867 59 rna-NZN594_LOCUS419 31341675 3 2262762 2262820 Rotaria sp. silwood1 2762511 CGA|GTAAGCTTTT...GAAATTTTATCT/TGAAATTTTATC...GTCAG|GAT 0 1 8.347
174594054 GT-AG 0 0.0607708585847625 64 rna-NZN594_LOCUS419 31341675 4 2262878 2262941 Rotaria sp. silwood1 2762511 ATT|GTATGTATAT...TTTTTCTTATTA/TTTTTTCTTATT...CCTAG|GCA 0 1 9.949
174594055 GT-AG 0 1.000000099473604e-05 1153 rna-NZN594_LOCUS419 31341675 5 2263672 2264824 Rotaria sp. silwood1 2762511 TTG|GTAAATAAAA...TTTTTCTGAACA/AAATTTTTCATT...TTTAG|GTC 1 1 30.467
174594056 GT-AG 0 0.0042033020084505 59 rna-NZN594_LOCUS419 31341675 6 2265005 2265063 Rotaria sp. silwood1 2762511 TCG|GTAAATTTTT...TTGTCTTTAATT/AATTTATTTATT...TTTAG|AGG 1 1 35.526
174594057 GT-AG 0 0.0003164632436378 267 rna-NZN594_LOCUS419 31341675 7 2265708 2265974 Rotaria sp. silwood1 2762511 CAG|GTATGATTTA...TTTCTCATATCA/TCGTTTCTCATA...TTTAG|CTT 0 1 53.626
174594058 GT-AG 0 3.09384990533252e-05 942 rna-NZN594_LOCUS419 31341675 8 2266672 2267613 Rotaria sp. silwood1 2762511 CAT|GTAAGATTTA...TTCTTTTTATAT/TTTCTTTTTATA...TTTAG|ACG 1 1 73.215

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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]);