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 = 14452909

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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
77225518 GT-AG 0 8.516674594700355e-05 1514 rna-XM_021040526.2 14452909 1 1350326 1351839 Exaiptasia diaphana 2652724 GAG|GTAAGCTTTT...TTTGTGTTACAA/GTTTGTGTTACA...TGCAG|CCA 0 1 6.413
77225519 GT-AG 0 2.148108843719309e-05 146 rna-XM_021040526.2 14452909 2 1349885 1350030 Exaiptasia diaphana 2652724 AAG|GTAAAGTTCA...TTTATCTTAATT/TTTATCTTAATT...TTTAG|TCG 1 1 29.77
77225520 GT-AG 0 1.000000099473604e-05 2733 rna-XM_021040526.2 14452909 3 1347051 1349783 Exaiptasia diaphana 2652724 CCG|GTAAGGAAAC...TCAATATTAATG/TAATGTTTCATT...TTCAG|GTT 0 1 37.767
77225521 GT-AG 0 0.0001122950336291 812 rna-XM_021040526.2 14452909 4 1346191 1347002 Exaiptasia diaphana 2652724 GAG|GTATGTAAAA...TATCCATTAAAC/ATTAAACTCAGT...ATTAG|ATC 0 1 41.568
77225522 GT-AG 0 1.000000099473604e-05 229 rna-XM_021040526.2 14452909 6 1339867 1340095 Exaiptasia diaphana 2652724 AAG|GTAAGCTAAG...GTAGTGTTGACA/GTAGTGTTGACA...ACTAG|GAA 1 1 70.15
77225523 GT-AG 0 2.4648719246123253e-05 1780 rna-XM_021040526.2 14452909 7 1337910 1339689 Exaiptasia diaphana 2652724 CTG|GTAAGCTAAA...AACCCGTTGATT/CGTTGATTGACA...TGCAG|ATG 1 1 84.165

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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]);