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)

8 rows where transcript_id = 31411922

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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
174865921 GT-AG 0 8.856819244120765e-05 88 rna-NCT539_LOCUS687 31411922 1 3502753 3502840 Rotaria sp. silwood2 2762512 TAC|GTTCATTAAT...CTATCCTTCAAT/TATTGTTTCATC...ATAAG|TGA 2 1 0.41
174865922 GT-AG 0 1.1215948173639942e-05 64 rna-NCT539_LOCUS687 31411922 2 3502079 3502142 Rotaria sp. silwood2 2762512 AAA|GTAAGTTGAA...GAAATATTAATT/GAAATATTAATT...AATAG|AAT 0 1 23.128
174865923 GT-AG 0 1.000000099473604e-05 62 rna-NCT539_LOCUS687 31411922 3 3501813 3501874 Rotaria sp. silwood2 2762512 ACG|GTAAGATTTT...GAATTTTTACTA/TGAATTTTTACT...TATAG|TTT 0 1 30.726
174865924 GT-AG 0 0.0001972196400592 1290 rna-NCT539_LOCUS687 31411922 4 3500394 3501683 Rotaria sp. silwood2 2762512 CAG|GTAACGATGA...CTCTCTTTAGTC/TATAGACTCATT...TTTAG|ATA 0 1 35.531
174865925 GT-AG 0 1.000000099473604e-05 61 rna-NCT539_LOCUS687 31411922 5 3500238 3500298 Rotaria sp. silwood2 2762512 AAG|GTAGAATGTC...ATTCTATTAAAT/TAAATATTTATT...CTTAG|ATG 2 1 39.069
174865926 GT-AG 0 0.0001410720111434 65 rna-NCT539_LOCUS687 31411922 6 3500046 3500110 Rotaria sp. silwood2 2762512 CAA|GTAAAGTTTT...TTTTTTTTATTA/ATTTTTTTTATA...TTTAG|TTA 0 1 43.799
174865927 GT-AG 0 1.000000099473604e-05 70 rna-NCT539_LOCUS687 31411922 7 3499813 3499882 Rotaria sp. silwood2 2762512 AAG|GTAAGACATG...TTTTTCTTTTTT/CGAATATTTATG...TTTAG|CCG 1 1 49.87
174865928 GT-AG 0 1.000000099473604e-05 1286 rna-NCT539_LOCUS687 31411922 8 3498194 3499479 Rotaria sp. silwood2 2762512 CAT|GTCAATTAAA...TCACCATTAGTA/TATAAATTAAAT...TTTAG|GTT 1 1 62.272

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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]);