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)

9 rows where transcript_id = 22190675

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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
120267716 GT-AG 0 1.000000099473604e-05 554 rna-XM_022277912.1 22190675 1 5442532 5443085 Momordica charantia 3673 CAG|GTAAAATTTG...TTCCCATTGATA/ATTTGTCTCATT...GACAG|CAT 0 1 20.923
120267717 GT-AG 0 1.000000099473604e-05 206 rna-XM_022277912.1 22190675 2 5444232 5444437 Momordica charantia 3673 AAG|GTCTGAGATA...TTTTACTTAAAT/TTCTATTTTACT...TGCAG|ACT 0 1 52.389
120267718 GT-AG 0 9.764727704537408e-05 109 rna-XM_022277912.1 22190675 3 5445572 5445680 Momordica charantia 3673 AAG|GTCTTTTCAG...AAGATCTGAACT/AAATTATTTATA...TGCAG|ACA 0 1 83.526
120267719 GT-AG 0 0.0004982350388967 522 rna-XM_022277912.1 22190675 4 5445723 5446244 Momordica charantia 3673 CAG|GTTTGTTTTT...TGTTTTTTAAAA/TTGTTTTTTAAA...TGAAG|GAA 0 1 84.679
120267720 GT-AG 0 1.000000099473604e-05 409 rna-XM_022277912.1 22190675 5 5446322 5446730 Momordica charantia 3673 CAG|GTTTGTACAA...ACCTTTTTAGTG/GCTTTTTTCATG...TGCAG|CAT 2 1 86.793
120267721 GT-AG 0 0.123973532953108 105 rna-XM_022277912.1 22190675 6 5446816 5446920 Momordica charantia 3673 GTT|GTATGGTTTT...GTGTTCTTACCA/AGTGTTCTTACC...TTCAG|GTC 0 1 89.127
120267722 GT-AG 0 1.000000099473604e-05 127 rna-XM_022277912.1 22190675 7 5447005 5447131 Momordica charantia 3673 ACA|GTTAGTATTT...CATCTCTTGTTA/TTTATACTAACA...TTCAG|ATA 0 1 91.433
120267723 GT-AG 0 0.0004424024506972 80 rna-XM_022277912.1 22190675 8 5447234 5447313 Momordica charantia 3673 GAG|GTAGTCTACT...TGTTCCTTCGTG/CTTATGATTATC...TGCAG|ACG 0 1 94.234
120267724 GT-AG 0 0.0001613810884925 892 rna-XM_022277912.1 22190675 9 5447413 5448304 Momordica charantia 3673 GTT|GTAAGTATGA...CAAATCTTATTT/CTTTTCTTCATG...TACAG|GTA 0 1 96.952

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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]);