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 = 13705577

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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
72997459 GT-AG 0 1.000000099473604e-05 1948 rna-XM_007516479.2 13705577 1 2893164 2895111 Erinaceus europaeus 9365 CCT|GTGAGTATCG...TTCTCCTTCCCC/CTCCCTTCTATC...CCCAG|GAG 0 1 2.982
72997460 GT-AG 0 1.000000099473604e-05 2572 rna-XM_007516479.2 13705577 2 2895317 2897888 Erinaceus europaeus 9365 AGT|GTGAGTCCTC...ATGGCCTTTCAT/GAGGGGCTCACG...TGCAG|TCA 1 1 16.567
72997461 GT-AG 0 1.000000099473604e-05 2342 rna-XM_007516479.2 13705577 3 2897972 2900313 Erinaceus europaeus 9365 AAG|GTGAGCCTCC...CTGTGCTGAGCC/CCTGTGCTGAGC...CGCAG|ATC 0 1 22.068
72997462 GT-AG 0 0.0004882701046179 270 rna-XM_007516479.2 13705577 4 2900579 2900848 Erinaceus europaeus 9365 CAG|GTACCTGCAG...TTTTCCTTCTGC/TTCTGCCCCACC...CCCAG|CCC 1 1 39.629
72997463 GT-AG 0 1.000000099473604e-05 323 rna-XM_007516479.2 13705577 5 2901022 2901344 Erinaceus europaeus 9365 CTG|GTGAGTGTCT...TCTGCCTTAAGG/CTCTGCCTTAAG...TGCAG|AGC 0 1 51.093
72997464 GT-AG 0 1.000000099473604e-05 340 rna-XM_007516479.2 13705577 6 2901543 2901882 Erinaceus europaeus 9365 GAG|GTGAGGGGCA...GAGTCTGTAGAG/GAGGTGCTGACC...CCAAG|GTG 0 1 64.215
72997465 GT-AG 0 1.000000099473604e-05 770 rna-XM_007516479.2 13705577 7 2902129 2902898 Erinaceus europaeus 9365 CCG|GTGAGTCTCA...GGGTTCTCAGCT/GGGGTTCTCAGC...CCTAG|CTC 0 1 80.517

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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]);