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)

6 rows where transcript_id = 15374501

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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
83326630 GT-AG 0 1.861263556653101e-05 102 rna-gnl|WGS:QKYT|C1645_mRNA705385 15374501 2 584108 584209 Glomus cerebriforme 658196 GTG|GTAAGTTAAA...TATTTTTTAAAT/TTTTGTTTTATA...AATAG|GTG 1 1 9.125
83326631 GT-AG 0 1.000000099473604e-05 95 rna-gnl|WGS:QKYT|C1645_mRNA705385 15374501 3 583950 584044 Glomus cerebriforme 658196 AAG|GTTAGTTATG...TCATTGTTAATT/TATTAATTCATT...ATTAG|CCG 1 1 12.487
83326632 GT-AG 0 0.0023089293880983 76 rna-gnl|WGS:QKYT|C1645_mRNA705385 15374501 4 583805 583880 Glomus cerebriforme 658196 TGA|GTATGAATTT...TTTATATTAATT/TTTATATTAATT...ATTAG|TGA 1 1 16.169
83326633 GT-AG 0 1.354532792885746e-05 75 rna-gnl|WGS:QKYT|C1645_mRNA705385 15374501 5 583639 583713 Glomus cerebriforme 658196 TAG|GTAAATATTC...AAAATTTTAATT/TTTTTTCTAATA...TATAG|TGC 2 1 21.025
83326634 GT-AG 0 0.0012088617154246 85 rna-gnl|WGS:QKYT|C1645_mRNA705385 15374501 6 583393 583477 Glomus cerebriforme 658196 CCG|GTATTTAAAA...TTTCTTTTACTT/CTTTTACTTACC...AATAG|TAT 1 1 29.616
83326904 GT-AG 0 1.000000099473604e-05 109 rna-gnl|WGS:QKYT|C1645_mRNA705385 15374501 1 584378 584486 Glomus cerebriforme 658196 AAT|GTAATAAGCT...ATATCACTAATA/ATCATACTAATA...TTTAG|AAA   0 2.348

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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]);