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 = 30293520

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
169297344 GT-AG 0 3.923787989807125e-05 560 rna-RIMITATOR_LOCUS151 30293520 1 25328107 25328666 Ranitomeya imitator 111125 CAG|GTAGTATTTT...TTCCTTTTAATT/TTCCTTTTAATT...TATAG|TCT 0 1 7.034
169297345 GT-AG 0 1.000000099473604e-05 2240 rna-RIMITATOR_LOCUS151 30293520 2 25325671 25327910 Ranitomeya imitator 111125 CAG|GTAAGAATTT...ACTTCATTACTT/CATTACTTTACT...TTAAG|ATT 1 1 16.046
169297346 GT-AG 0 0.0026886921321013 1414 rna-RIMITATOR_LOCUS151 30293520 3 25324089 25325502 Ranitomeya imitator 111125 CAT|GTATGTAGAC...TATTTCATAATT/AATTATTTCATA...AATAG|ATG 1 1 23.77
169297347 GT-AG 0 1.2327467201246404e-05 1703 rna-RIMITATOR_LOCUS151 30293520 4 25321290 25322992 Ranitomeya imitator 111125 AAG|GTAAATTCGA...TAGTTCTGAATT/ATAGTTCTGAAT...TTCAG|CCT 2 1 74.161
169297348 GT-AG 0 1.000000099473604e-05 4328 rna-RIMITATOR_LOCUS151 30293520 5 25316789 25321116 Ranitomeya imitator 111125 CTG|GTAAGATTAC...AAGGCTTTACTA/TGCAATTTGATT...GTCAG|GTT 1 1 82.115
169297349 GT-AG 0 1.000000099473604e-05 2596 rna-RIMITATOR_LOCUS151 30293520 6 25314083 25316678 Ranitomeya imitator 111125 CAA|GTTAGTATAT...TGTTTCTTCTCT/CCTAACTTCATT...TTAAG|GCT 0 1 87.172
169297350 GT-AG 0 1.000000099473604e-05 1478 rna-RIMITATOR_LOCUS151 30293520 7 25312491 25313968 Ranitomeya imitator 111125 CGA|GTAAGTAGTC...TATTTCTTTCTG/TCTTTCTGCATT...TCTAG|TTT 0 1 92.414

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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]);