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 = 26741193

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Suggested facets: dinucleotide_pair, score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
148388736 GT-AG 0 0.023004317891211 73 rna-gnl|WGS:JAHLWZ|Pelo_173_1 26741193 1 403643 403715 Pelomyxa schiedti 1580589 TAC|GTATGCGGTT...TTTTTTTAAATA/TGATAATTTACG...TCTAG|ATC 0 1 13.374
148388737 GT-AG 0 1.000000099473604e-05 49 rna-gnl|WGS:JAHLWZ|Pelo_173_1 26741193 2 403530 403578 Pelomyxa schiedti 1580589 TCG|GTAAGAAACC...AGTTCCGTCACT/CCGTCACTGAAT...TTCAG|GTT 1 1 17.764
148388738 GT-AG 0 0.2229287028153615 45 rna-gnl|WGS:JAHLWZ|Pelo_173_1 26741193 3 403354 403398 Pelomyxa schiedti 1580589 CAT|GTATTTTCTT...AACATCTTATAT/AAACATCTTATA...TTCAG|ATT 0 1 26.749
148388739 GC-AG 0 1.000000099473604e-05 47 rna-gnl|WGS:JAHLWZ|Pelo_173_1 26741193 4 402977 403023 Pelomyxa schiedti 1580589 AAG|GCATGCCCAC...TTCCTGTCAACG/CTAATAATTATT...CACAG|CTG 0 1 49.383
148388740 GT-AG 0 0.0001759262621584 53 rna-gnl|WGS:JAHLWZ|Pelo_173_1 26741193 5 402736 402788 Pelomyxa schiedti 1580589 CAA|GTGTGTTCTT...TTCCCCTTGTTT/GAATTCCTCACT...GTTAG|GAA 2 1 62.277
148388741 GT-AG 0 0.0013187050060438 47 rna-gnl|WGS:JAHLWZ|Pelo_173_1 26741193 6 402476 402522 Pelomyxa schiedti 1580589 CAG|GTAATTTTTT...TTTCCCTTGATT/CCTTGATTCACA...AACAG|GAC 2 1 76.886
148388742 GT-AG 0 0.0001339009533507 42 rna-gnl|WGS:JAHLWZ|Pelo_173_1 26741193 7 402219 402260 Pelomyxa schiedti 1580589 AGG|GTACTTAATC...AACCCCTTTACA/TACAACCTGACA...CTCAG|GCA 1 1 91.632

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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]);