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 = 19079943

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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
101757073 GT-AG 0 1.8385026750459203e-05 62191 rna-XM_042870970.1 19079943 2 10693365 10755555 Lagopus leucura 30410 TGT|GTAAGTACCC...TCTCTCTTGTTG/TACCAACCCACT...TACAG|GAA 2 1 68.632
101757074 GT-AG 0 1.000000099473604e-05 7110 rna-XM_042870970.1 19079943 3 10755660 10762769 Lagopus leucura 30410 CAG|GTGTGAGATC...TTGTTCTTCTCT/TTCTTTCTCTCT...CACAG|CTC 1 1 71.895
101757075 GT-AG 0 1.000000099473604e-05 6276 rna-XM_042870970.1 19079943 4 10762788 10769063 Lagopus leucura 30410 AAG|GTAAGACTGC...TTGGTCTTGCTT/CTGCAGCTCAGT...TGCAG|AAG 1 1 72.459
101757076 GT-AG 0 1.000000099473604e-05 490 rna-XM_042870970.1 19079943 5 10769189 10769678 Lagopus leucura 30410 AAG|GTCAGTGGTT...GCATCTTTATTC/AAGGGTCTAATT...AACAG|AGC 0 1 76.38
101757077 GT-AG 0 1.000000099473604e-05 653 rna-XM_042870970.1 19079943 6 10769779 10770431 Lagopus leucura 30410 CAG|GTGAGAGGGA...GACCTCTTATTC/ATGAGGCTCAAT...TGCAG|CAG 1 1 79.517
101757078 GT-AG 0 1.000000099473604e-05 155 rna-XM_042870970.1 19079943 7 10770708 10770862 Lagopus leucura 30410 CAG|GTGGGGAGGC...TGGACCCTGATG/TGGACCCTGATG...CGCAG|ACA 1 1 88.174
101760829 GT-AG 0 1.000000099473604e-05 18010 rna-XM_042870970.1 19079943 1 10673543 10691552 Lagopus leucura 30410 GGG|GTAAGTAAGC...TCTTCCTTTTCT/TTTTCTCTCATG...TTCAG|GTT   0 13.237

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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]);