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 = 30863734

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
172492201 GT-AG 0 0.0010378820947721 68 rna-XM_025312269.1 30863734 1 1011939 1012006 Rhizophagus irregularis 588596 GAT|GTAGGTGTTA...TAATCCTTATCT/CCTTATCTTACC...TAAAG|TTT 0 1 43.349
172492202 GT-AG 0 0.00010891649862 61 rna-XM_025312269.1 30863734 2 1012214 1012274 Rhizophagus irregularis 588596 GAA|GTAAGTTAAA...TTTTTTTTAAAA/TTTTTTTTAAAA...TTTAG|CCA 0 1 59.174
172492203 GT-AG 0 1.000000099473604e-05 78 rna-XM_025312269.1 30863734 3 1012525 1012602 Rhizophagus irregularis 588596 AAG|GTTAGAAAAA...AAATTCTTAATA/TTTTTATTTATA...TATAG|ATC 1 1 78.287
172492204 GT-AG 0 0.0005657288516075 71 rna-XM_025312269.1 30863734 4 1012687 1012757 Rhizophagus irregularis 588596 TAG|GTATATTAAT...ATTGTCATATTA/ATTATTGTCATA...AATAG|GTG 1 1 84.709
172492205 GT-AG 0 1.000000099473604e-05 80 rna-XM_025312269.1 30863734 5 1012797 1012876 Rhizophagus irregularis 588596 GTG|GTAAAATAAA...ATATATTTGATT/ATATATTTGATT...TTTAG|GAT 1 1 87.691
172492206 GT-AG 0 1.803444724614013e-05 65 rna-XM_025312269.1 30863734 6 1013027 1013091 Rhizophagus irregularis 588596 CCG|GTAAGTATTA...ATGGTTTTAAAT/TTAAATCTAATA...TACAG|GTA 1 1 99.159

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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]);