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 = 19079915

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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
101756624 GT-AG 0 2.6839801024525195e-05 555 rna-XM_042895301.1 19079915 2 5375586 5376140 Lagopus leucura 30410 TTG|GTAAGCAGCT...CGGGTTTTAGTA/CCGGGTTTTAGT...CTCAG|CTC 2 1 4.684
101756625 GT-AG 0 3.17786261707451e-05 614 rna-XM_042895301.1 19079915 3 5376245 5376858 Lagopus leucura 30410 GGT|GTAAGTGTAC...CCTGCCCTAACC/CCTGCCCTAACC...CACAG|TCT 1 1 7.567
101756626 GT-AG 0 1.000000099473604e-05 967 rna-XM_042895301.1 19079915 4 5377122 5378088 Lagopus leucura 30410 CTG|GTGAGTGAGT...TTCCTCCTGTCA/AGCCAGTTTACA...TGCAG|ATA 0 1 14.856
101756627 GT-AG 0 1.000000099473604e-05 15135 rna-XM_042895301.1 19079915 5 5378157 5393291 Lagopus leucura 30410 GAG|GTGAGTCCAG...CCTGCCTTGTCA/TTGTGCTTCATA...CTCAG|GTA 2 1 16.741
101756628 GT-AG 0 1.000000099473604e-05 3095 rna-XM_042895301.1 19079915 6 5393480 5396574 Lagopus leucura 30410 CAG|GTGAGACCTT...CACCCCTCATTT/CCACCCCTCATT...TCTAG|GAG 1 1 21.951
101756629 GT-AG 0 6.657539173537365e-05 844 rna-XM_042895301.1 19079915 7 5397226 5398069 Lagopus leucura 30410 CAG|GTAAGCCTTG...TTTTCCTTCTCC/TGCTTTATTATA...TCCAG|CTT 1 1 39.994
101760789 GT-AG 0 1.000000099473604e-05 14576 rna-XM_042895301.1 19079915 1 5360891 5375466 Lagopus leucura 30410 GAG|GTGAGTCAGC...CCTTCCTTCCTT/TGGCCACTCACT...TTCAG|AAC   0 1.469

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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]);