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)

10 rows where transcript_id = 22631631

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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
122792358 GT-AG 0 1.000000099473604e-05 719 rna-XM_009412204.2 22631631 1 15542060 15542778 Musa acuminata 4641 CAG|GTTGGTTTTC...TGATGCTTAACA/TTTCAACTAACT...TACAG|GAC 0 1 11.241
122792359 GT-AG 0 1.000000099473604e-05 92 rna-XM_009412204.2 22631631 2 15540619 15540710 Musa acuminata 4641 TAG|GTAAGAGAAT...ACATTCTAATTA/AACATTCTAATT...GTCAG|GAC 2 1 48.682
122792360 GT-AG 0 1.000000099473604e-05 107 rna-XM_009412204.2 22631631 3 15540401 15540507 Musa acuminata 4641 CAG|GTCTGTAGGT...GAATATTTAGTA/TATTTAGTAATT...TTCAG|TGT 2 1 51.762
122792361 GT-AG 0 1.000000099473604e-05 87 rna-XM_009412204.2 22631631 4 15540037 15540123 Musa acuminata 4641 GGA|GTGGGTATAA...CATTTCATAATT/AATTTATTCACT...CACAG|GTA 0 1 59.45
122792362 GT-AG 0 0.0002835778590995 82 rna-XM_009412204.2 22631631 5 15539866 15539947 Musa acuminata 4641 TGG|GTATGTAATC...TAATTTTTGTTT/TGTTTTGTGATC...TGCAG|CTT 2 1 61.921
122792363 GT-AG 0 0.0521903321826596 773 rna-XM_009412204.2 22631631 6 15538984 15539756 Musa acuminata 4641 AAG|GTACACTTCT...TTGTTTTTGACA/TTGTTTTTGACA...TTCAG|GCA 0 1 64.946
122792364 GT-AG 0 1.000000099473604e-05 103 rna-XM_009412204.2 22631631 7 15538677 15538779 Musa acuminata 4641 CTT|GTGAGTCTTG...AAATCCATGAAA/GTTTGGTTAATT...TCCAG|GTC 0 1 70.608
122792365 GT-AG 0 1.000000099473604e-05 169 rna-XM_009412204.2 22631631 8 15538382 15538550 Musa acuminata 4641 CAG|GTTAGTAATA...ATCTTCTTGAAT/CCTGTTTTAAAT...TCCAG|GCT 0 1 74.105
122792366 GT-AG 0 4.575777268088298e-05 76 rna-XM_009412204.2 22631631 9 15538207 15538282 Musa acuminata 4641 ATG|GTCTAGTCTC...TGTGTGTTGACA/TGTGTGTTGACA...TGCAG|ATA 0 1 76.853
122792367 GT-AG 0 0.0124933435824396 798 rna-XM_009412204.2 22631631 10 15537217 15538014 Musa acuminata 4641 AAG|GTATATTTCC...GAATTCTAAAAC/TGAATTCTAAAA...CACAG|TTC 0 1 82.182

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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]);