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 = 38690335

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
213933294 GT-AG 0 0.001859609084947 107 rna-XM_016029193.2 38690335 2 13112380 13112486 Ziziphus jujuba 326968 ATG|GTATGTCATG...TAATCTTTATTC/TTAATCTTTATT...GACAG|CGG 1 1 38.677
213933295 GT-AG 0 1.000000099473604e-05 517 rna-XM_016029193.2 38690335 3 13111502 13112018 Ziziphus jujuba 326968 TGA|GTGAGTTACA...ACAGTTTTAATG/GTATAGTTCACT...TACAG|ATT 2 1 46.771
213933296 GT-AG 0 1.000000099473604e-05 1664 rna-XM_016029193.2 38690335 4 13109753 13111416 Ziziphus jujuba 326968 CAG|GTAATTCATT...TTCTCATTGAAC/CCTTTTCTCATT...TACAG|ATT 0 1 48.677
213933297 GT-AG 0 0.0003671684871676 541 rna-XM_016029193.2 38690335 5 13109155 13109695 Ziziphus jujuba 326968 AAG|GTATGTGGAA...TTATCTTTAACT/TTATCTTTAACT...TGCAG|GCA 0 1 49.955
213933298 GT-AG 0 0.0001091455780642 216 rna-XM_016029193.2 38690335 6 13108879 13109094 Ziziphus jujuba 326968 GAG|GTAATTTATT...TTATTTTTGACT/TTATTTTTGACT...ATCAG|GGA 0 1 51.3
213933299 GT-AG 0 0.0609844302404971 493 rna-XM_016029193.2 38690335 7 13108173 13108665 Ziziphus jujuba 326968 GAG|GTATATTTTC...TTTCTTTTAGTG/AATATTCTTATA...TGCAG|GAC 0 1 56.076
213933300 GT-AG 0 1.000000099473604e-05 1840 rna-XM_016029193.2 38690335 8 13104806 13106645 Ziziphus jujuba 326968 AAG|GTGATTTCTC...AATGTCTTAACC/GTTGTTTTCAAT...AACAG|AAC 0 1 90.314
213945264 GT-AG 0 1.000000099473604e-05 910 rna-XM_016029193.2 38690335 1 13114189 13115098 Ziziphus jujuba 326968 TCG|GTAAGTAAAT...TTTTTTTTATTT/ATTTTTTTTATT...TTCAG|GTA   0 2.735

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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]);