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 = 4024523

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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
20804968 GT-AG 0 0.0003724169571618 1017 rna-XM_010298856.1 4024523 1 4852 5868 Balearica regulorum 925459 CCG|GTATTTGACT...GCCATTTTGAAT/CAGTATTTGATC...TGCAG|CCA 0 1 12.017
20804969 GT-AG 0 1.000000099473604e-05 976 rna-XM_010298856.1 4024523 2 6041 7016 Balearica regulorum 925459 CTG|GTGAGAAGGA...CTTTCTGTGACT/TGTGTTTTCACT...AATAG|GAG 1 1 26.471
20804970 GT-AG 0 1.7582628558179435e-05 922 rna-XM_010298856.1 4024523 3 7162 8083 Balearica regulorum 925459 CAG|GTCTGTATTA...GTACGTTTAATT/GTACGTTTAATT...TATAG|TCA 2 1 38.655
20804971 GT-AG 0 1.000000099473604e-05 1956 rna-XM_010298856.1 4024523 4 8244 10199 Balearica regulorum 925459 GAG|GTAGATGTTC...TTGTCTTTTTCC/TTTATATTCACA...TAAAG|GTT 0 1 52.101
20804972 GT-AG 0 1.000000099473604e-05 166 rna-XM_010298856.1 4024523 5 10429 10594 Balearica regulorum 925459 AAG|GTAATGCTGG...TTGTTTTTGTTG/CATTCGTTTACT...TCAAG|ATT 1 1 71.345
20804973 GT-AG 0 1.125917486114796e-05 773 rna-XM_010298856.1 4024523 6 10760 11532 Balearica regulorum 925459 CAG|GTAAATTATG...CCTTTTGTGATT/TTGTAATTTATT...CCCAG|CTT 1 1 85.21

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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]);