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 = 34091282

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Suggested facets: score, length, 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
190849728 GT-AG 0 1.817662238044107e-05 563 rna-XM_013251555.1 34091282 1 1540999 1541561 Stomoxys calcitrans 35570 GGG|GTAAGTTAAG...AATCTTTTAATT/TGTTTCTTCACC...TGCAG|CGA 2 1 0.206
190849729 GT-AG 0 0.00115357278069 64 rna-XM_013251555.1 34091282 2 1540646 1540709 Stomoxys calcitrans 35570 AAG|GTAACTATTA...TCATACTTAAAT/ATGTTTCTAACA...TGCAG|TTT 0 1 12.119
190849730 GT-AG 0 1.000000099473604e-05 86 rna-XM_013251555.1 34091282 3 1540499 1540584 Stomoxys calcitrans 35570 ATG|GTAAATATAC...GTTGTTTTGTCT/CGTTGGATTATT...TTCAG|GGT 1 1 14.633
190849731 GT-AG 0 1.000000099473604e-05 64 rna-XM_013251555.1 34091282 4 1540065 1540128 Stomoxys calcitrans 35570 AAG|GTGACTAACG...TGTGTTTTAAAT/TTGTGTTTCATG...TCCAG|CTG 2 1 29.885
190849732 GT-AG 0 5.888566647910118e-05 73 rna-XM_013251555.1 34091282 5 1539913 1539985 Stomoxys calcitrans 35570 CAG|GTATGGCTGA...TTTGTCTTACAT/ATTTGTCTTACA...ATTAG|GAA 0 1 33.141
190849733 GT-AG 0 1.000000099473604e-05 71 rna-XM_013251555.1 34091282 6 1539566 1539636 Stomoxys calcitrans 35570 ACG|GTAAGTAGTA...TTTACTTTTACG/TTTACTTTTACG...TACAG|ATG 0 1 44.518
190849796 GT-AG 0 1.000000099473604e-05 4930 rna-XM_013251555.1 34091282 7 1534492 1539421 Stomoxys calcitrans 35570 AAG|GTAGGTGTGT...ATTGCTTTAATT/ATTTTATTTATT...TGTAG|ATT   0 50.453

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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]);