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 = 25075780

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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
137882594 GT-AG 0 1.000000099473604e-05 15048 rna-XM_020753324.1 25075780 1 164022 179069 Orbicella faveolata 48498 CAG|GTTGGTAAAA...TTCATCTTAATT/TTGTTTTTTATT...TGTAG|GTG 2 1 16.361
137882595 GT-AG 0 0.0086369677382436 13594 rna-XM_020753324.1 25075780 2 150360 163953 Orbicella faveolata 48498 CAG|GTACACTGTA...CATGCTTTGATG/GCGATGTTAATT...TGCAG|TGC 1 1 24.664
137882596 GT-AG 0 1.000000099473604e-05 5865 rna-XM_020753324.1 25075780 3 144349 150213 Orbicella faveolata 48498 TTA|GTAAGTAATA...CAAGTATTAATA/CAAGTATTAATA...CTTAG|GAA 0 1 42.491
137882597 GT-AG 0 1.000000099473604e-05 1362 rna-XM_020753324.1 25075780 4 142928 144289 Orbicella faveolata 48498 TAT|GTAAGCCAGG...CATGCACTAATT/CATGCACTAATT...TTTAG|CTC 2 1 49.695
137882598 GT-AG 0 1.000000099473604e-05 904 rna-XM_020753324.1 25075780 5 141964 142867 Orbicella faveolata 48498 CAG|GTGAGGATGA...TTTATTTTGAAT/TTTATTTTGAAT...AACAG|GAT 2 1 57.021
137882599 GT-AG 0 1.000000099473604e-05 1409 rna-XM_020753324.1 25075780 6 140519 141927 Orbicella faveolata 48498 GAT|GTGAGTCTGT...CCTGGCTTAATA/TTTTTTTTCATG...GTTAG|ATG 2 1 61.416
137882600 GT-AG 0 1.000000099473604e-05 6763 rna-XM_020753324.1 25075780 7 133643 140405 Orbicella faveolata 48498 AAG|GTAGGTATAG...CTCTTTGTAATG/CTCTTTGTAATG...GATAG|TTT 1 1 75.214

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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]);