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 = 12917248

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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
68847349 GT-AG 0 1.000000099473604e-05 1043 rna-XM_009639165.2 12917248 1 1962304 1963346 Egretta garzetta 188379 CCT|GTAAGAAATA...AAGCCTTGGACT/TTGTGTGTTATT...TCAAG|GCA 2 1 3.842
68847350 GT-AG 0 1.000000099473604e-05 1058 rna-XM_009639165.2 12917248 2 1963493 1964550 Egretta garzetta 188379 AGG|GTGAGCTCGT...AAGTCTTTTACT/AAGTCTTTTACT...TGCAG|GTT 1 1 12.09
68847351 GT-AG 0 3.068333005447392e-05 2085 rna-XM_009639165.2 12917248 3 1964722 1966806 Egretta garzetta 188379 TCT|GTAAGTGCCA...TAACTTTTGACC/TTTTATTTGATG...TGTAG|CAT 1 1 21.751
68847352 GT-AG 0 1.000000099473604e-05 738 rna-XM_009639165.2 12917248 4 1966957 1967694 Egretta garzetta 188379 ATC|GTAAGTGACT...CAGTCCCAGATA/AGCCTGCTGACC...CACAG|GGG 1 1 30.226
68847353 GT-AG 0 1.7530671734411093e-05 143 rna-XM_009639165.2 12917248 5 1967815 1967957 Egretta garzetta 188379 TCC|GTAAGTGCCT...TCTCTCTTCATT/TCTCTCTTCATT...CATAG|ACT 1 1 37.006
68847354 GT-AG 0 1.000000099473604e-05 4264 rna-XM_009639165.2 12917248 6 1968105 1972368 Egretta garzetta 188379 AAG|GTGAGGTTCA...GCTTTCTTATTA/AGCTTTCTTATT...TACAG|TAC 1 1 45.311
68847355 GT-AG 0 1.000000099473604e-05 1794 rna-XM_009639165.2 12917248 7 1972489 1974282 Egretta garzetta 188379 AAG|GTGAGACCAT...TTCCCCTTGACT/TGTGTTTTTATC...CTTAG|ATG 1 1 52.09
68847356 GT-AG 0 1.000000099473604e-05 1060 rna-XM_009639165.2 12917248 9 1975091 1976150 Egretta garzetta 188379 TCG|GTGAGTCGGC...AATATTTTATTT/TTTACATTCATC...TGCAG|GAC 0 1 97.627

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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]);