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 = 38690348

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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
213933511 GT-AG 0 1.000000099473604e-05 2177 rna-XM_016037018.2 38690348 1 26952734 26954910 Ziziphus jujuba 326968 AAG|GTCAGTGTCT...TAATCCTTCGCA/TTGGTAGTAATC...TGTAG|TAT 0 1 23.417
213933512 GT-AG 0 0.0002762609111127 1375 rna-XM_016037018.2 38690348 2 26951105 26952479 Ziziphus jujuba 326968 TAA|GTAATTTCAT...TTTCTTTTAATG/AAGTTGTTGATT...TTCAG|GAC 2 1 29.651
213933513 GT-AG 0 1.4847922264729693e-05 72 rna-XM_016037018.2 38690348 3 26950906 26950977 Ziziphus jujuba 326968 CTG|GTAATTTGCT...GCCTCTATAATT/TATTGTGTAAAC...CACAG|GAA 0 1 32.769
213933514 GT-AG 0 1.6837071829446615e-05 123 rna-XM_016037018.2 38690348 4 26950714 26950836 Ziziphus jujuba 326968 CAG|GTAGCAGAGT...CCATTTTTGATC/CCATTTTTGATC...TGCAG|GAG 0 1 34.462
213933515 GT-AG 0 0.0062700111155577 201 rna-XM_016037018.2 38690348 5 26950372 26950572 Ziziphus jujuba 326968 ATA|GTATGTATAT...AGTAGTTTAATT/AGTAGTTTAATT...ACCAG|CCA 0 1 37.923
213933516 GT-AG 0 1.000000099473604e-05 91 rna-XM_016037018.2 38690348 6 26950179 26950269 Ziziphus jujuba 326968 GAG|GTACTTGATG...TTAACTGTATTT/ATTAGATTAACT...TATAG|ATT 0 1 40.427
213933517 GT-AG 0 0.0003384272197375 606 rna-XM_016037018.2 38690348 7 26949226 26949831 Ziziphus jujuba 326968 AAG|GTATATGACA...CACCTTTTAATT/CTAAACTTCATT...TACAG|GCA 2 1 48.945
213933518 GT-AG 0 0.0002867936098877 2501 rna-XM_016037018.2 38690348 8 26945053 26947553 Ziziphus jujuba 326968 CCG|GTATGTCCCT...TTCTCATTATTT/TTCTTTCTCATT...TATAG|GGC 0 1 89.985

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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]);