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 = 24462871

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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
133657847 GT-AG 0 1.000000099473604e-05 2603 rna-XM_004391480.1 24462871 1 2374354 2376956 Odobenus rosmarus 9707 AAA|GTAAGTGCTA...TTTTCATTAAAT/AATTTTTTCATT...AACAG|ACA 0 1 1.596
133657848 GT-AG 0 0.0003784851163045 3073 rna-XM_004391480.1 24462871 2 2377059 2380131 Odobenus rosmarus 9707 AAG|GTAAACTTAA...GGTCACTTGATT/CCCTTGGTCACT...TGCAG|ATG 0 1 10.638
133657849 GT-AG 0 1.000000099473604e-05 2456 rna-XM_004391480.1 24462871 3 2380271 2382726 Odobenus rosmarus 9707 CAG|GTAGGAAGTG...ATATTTTTAAAT/TATTTTTTTATA...TATAG|GAG 1 1 22.961
133657850 GT-AG 0 1.000000099473604e-05 143 rna-XM_004391480.1 24462871 4 2382815 2382957 Odobenus rosmarus 9707 AGA|GTTGTAATTT...ACTGCCTGCACC/GTCTATGTCACT...AACAG|TGT 2 1 30.762
133657851 GT-AG 0 1.000000099473604e-05 198 rna-XM_004391480.1 24462871 5 2383178 2383375 Odobenus rosmarus 9707 AAG|GTAAGGAATG...TGATTCCTAATA/CCAGGTTTGATT...TGTAG|GTC 0 1 50.266
133657852 GT-AG 0 1.000000099473604e-05 1167 rna-XM_004391480.1 24462871 6 2383637 2384803 Odobenus rosmarus 9707 ATG|GTACGTGGGC...TAGTTGTTAGTT/TAGTTATTCATG...ACCAG|CTT 0 1 73.404
133657853 GT-AG 0 1.000000099473604e-05 865 rna-XM_004391480.1 24462871 7 2384940 2385804 Odobenus rosmarus 9707 GAG|GTAGGTCAAT...CAAATCTTATTA/TCAAATCTTATT...TGCAG|ATT 1 1 85.461
133657854 GT-AG 0 1.000000099473604e-05 6259 rna-XM_004391480.1 24462871 8 2385944 2392202 Odobenus rosmarus 9707 AAC|GTGAGTGCTT...TGTTTCTTAAGC/CATTTTATTATT...TTCAG|CAT 2 1 97.784

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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]);