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 = 6831644

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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
35541292 GT-AG 0 1.000000099473604e-05 2732 rna-XM_009699534.1 6831644 1 34712 37443 Cariama cristata 54380 CAG|GTAAGTATGC...AATTTTTTGAAA/AATTTTTTGAAA...AATAG|GTG 1 1 1.901
35541293 GT-AG 0 1.000000099473604e-05 1169 rna-XM_009699534.1 6831644 2 33438 34606 Cariama cristata 54380 TTG|GTAAGTGATG...GACACTTTAATA/TAACATCTTATA...TTTAG|CTA 1 1 17.251
35541294 GT-AG 0 1.000000099473604e-05 434 rna-XM_009699534.1 6831644 3 32974 33407 Cariama cristata 54380 GCT|GTGAGTGTTC...TGTCTCTAAAAT/TTGTCTCTAAAA...GAAAG|CTA 1 1 21.637
35541295 GT-AG 0 1.000000099473604e-05 4718 rna-XM_009699534.1 6831644 4 28132 32849 Cariama cristata 54380 CAT|GTGAGTATTT...AATTGTTTATTT/AAATTGTTTATT...TTCAG|TTT 2 1 39.766
35541296 GT-AG 0 1.000000099473604e-05 1366 rna-XM_009699534.1 6831644 5 26707 28072 Cariama cristata 54380 ATG|GTAAGTGACA...ATAATTTTGACT/ATAATTTTGACT...TCCAG|GTA 1 1 48.392
35541297 GT-AG 0 1.000000099473604e-05 505 rna-XM_009699534.1 6831644 6 26151 26655 Cariama cristata 54380 GAG|GTAGGTGCAG...CTTGTTATGAAA/TTGCTTGTTATG...TTCAG|ATG 1 1 55.848
35541298 GT-AG 0 0.0185357318803848 2444 rna-XM_009699534.1 6831644 7 23622 26065 Cariama cristata 54380 CAA|GTATGTTATT...ACATCCTGAACT/ATTTTATTCACA...TCAAG|GCT 2 1 68.275
35541299 GT-AG 0 1.000000099473604e-05 1160 rna-XM_009699534.1 6831644 8 22335 23494 Cariama cristata 54380 CAG|GTCTGTGATT...TTTACATTAACA/TTTACATTAACA...TATAG|CAT 0 1 86.842

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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]);