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 = 3529823

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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
17481207 GT-AG 0 1.000000099473604e-05 23070 rna-XM_034505230.1 3529823 1 137170252 137193321 Arvicanthis niloticus 61156 TCG|GTAAGCGAGC...TGTTGCTTATCC/AATTGACTTATT...CCAAG|GCA 2 1 9.127
17481208 GT-AG 0 1.000000099473604e-05 13326 rna-XM_034505230.1 3529823 2 137156725 137170050 Arvicanthis niloticus 61156 AAG|GTAAATGTCA...CTGTCTTTAAGT/GTAGTATTCAAT...TTTAG|GCT 2 1 12.334
17481209 GT-AG 0 1.000000099473604e-05 10686 rna-XM_034505230.1 3529823 3 137144621 137155306 Arvicanthis niloticus 61156 CTG|GTAAGATTAC...TCTCTTTTAATC/TCTCTTTTAATC...GAAAG|GAA 1 1 34.961
17481210 GT-AG 0 1.000000099473604e-05 8200 rna-XM_034505230.1 3529823 4 137136341 137144540 Arvicanthis niloticus 61156 CAG|GTAAATGTTT...GGTGTTTTATAC/GGGTGTTTTATA...TTTAG|CTT 0 1 36.237
17481211 GT-AG 0 3.38838189520443e-05 12292 rna-XM_034505230.1 3529823 5 137123959 137136250 Arvicanthis niloticus 61156 TCG|GTAGGTGTTT...TACTTCTTAAAA/AAGAAATTTACT...TTTAG|GGC 0 1 37.674
17481212 GT-AG 0 1.000000099473604e-05 2931 rna-XM_034505230.1 3529823 6 137120912 137123842 Arvicanthis niloticus 61156 CAG|GTAACAAGCT...AGTTTCATAGTA/AGAAGTTTCATA...TTTAG|GAG 2 1 39.524
17481213 GT-AG 0 3.13169473285022e-05 985 rna-XM_034505230.1 3529823 7 137119739 137120723 Arvicanthis niloticus 61156 CAG|GTAGGCGTTC...TTGTTTTTATAA/CTTGTTTTTATA...TTCAG|ATG 1 1 42.524

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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]);