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)

7 rows where transcript_id = 34828649

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
196137768 GT-AG 0 1.000000099473604e-05 99 rna-XM_025024074.1 34828649 1 7890 7988 Temnothorax curvispinosus 300111 GAG|GTTAGTGGAT...GTTGCACTGATA/GTTGCACTGATA...CACAG|TGG 0 1 4.545
196137769 GT-AG 0 1.000000099473604e-05 220 rna-XM_025024074.1 34828649 2 8119 8338 Temnothorax curvispinosus 300111 AAG|GTGACTGTAA...TACTCTTTACCA/ATACTCTTTACC...TACAG|TTC 1 1 11.338
196137770 GT-AG 0 0.1274846629472551 550 rna-XM_025024074.1 34828649 3 8545 9094 Temnothorax curvispinosus 300111 AAG|GTATTTTTTT...TTTATTTTAATT/TTTATTTTAATT...ATCAG|TAT 0 1 22.1
196137771 GT-AG 0 0.0004824784531612 854 rna-XM_025024074.1 34828649 4 9323 10176 Temnothorax curvispinosus 300111 AGT|GTAGGTATAA...AAATTCTTAATA/AAAATTCTTAAT...TATAG|AAT 0 1 34.013
196137772 GC-AG 0 1.000000099473604e-05 3671 rna-XM_025024074.1 34828649 5 10596 14266 Temnothorax curvispinosus 300111 CAG|GCAAGTAAAC...TCTCTTTTAAAA/TCTCTTTTAAAA...TCTAG|GAG 2 1 55.904
196137773 GT-AG 0 1.30319427246231e-05 111 rna-XM_025024074.1 34828649 6 14397 14507 Temnothorax curvispinosus 300111 CTT|GTAAGATATG...TCCATCTTATAA/TATAATTTTACG...TACAG|AGA 0 1 62.696
196137774 GT-AG 0 2.815490525163499e-05 194 rna-XM_025024074.1 34828649 7 14844 15037 Temnothorax curvispinosus 300111 ACC|GTAAGTACAG...ATTTGTTTAACT/ATTTGTTTAACT...AACAG|CCT 0 1 80.251

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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]);