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 = 9887131

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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
54167350 GT-AG 0 1.000000099473604e-05 2711 rna-XM_039338956.1 9887131 2 4478130 4480840 Crotalus tigris 88082 GAG|GTAAGATCAG...GTCTTCTTACGT/TGTCTTCTTACG...TATAG|ATT 0 1 31.305
54167351 GT-AG 0 0.0016118286957759 571 rna-XM_039338956.1 9887131 3 4481133 4481703 Crotalus tigris 88082 AGT|GTAAGTTTGA...TTTTTTTTATTT/ATTTTTTTTATT...TCTAG|ATT 1 1 54.684
54167352 GT-AG 0 0.0009260019548048 739 rna-XM_039338956.1 9887131 4 4481903 4482641 Crotalus tigris 88082 TAA|GTATGTGATC...TTAATTTTATAT/TTTAATTTTATA...TTCAG|TCT 2 1 70.616
54167353 GT-AG 0 0.0475122467904788 1508 rna-XM_039338956.1 9887131 5 4482718 4484225 Crotalus tigris 88082 AAG|GTACCTTGGA...TAACTTTTATTA/CTAACTTTTATT...GCTAG|GAA 0 1 76.701
54167354 GT-AG 0 0.0006496040581213 901 rna-XM_039338956.1 9887131 6 4484320 4485220 Crotalus tigris 88082 AAG|GTATGTTGAA...AGCATTTTATCG/CAGCATTTTATC...TCCAG|CCA 1 1 84.227
54167517 GT-AG 0 1.000000099473604e-05 1235 rna-XM_039338956.1 9887131 1 4476691 4477925 Crotalus tigris 88082 AAG|GTAAGTAGCA...AATTTCTTGGTC/GTTAAGTTAATG...CACAG|AAG   0 16.653

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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]);