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)

6 rows where transcript_id = 34091314

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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
190849889 GT-AG 0 9.085248200044748e-05 60 rna-XM_013252906.1 34091314 1 2311947 2312006 Stomoxys calcitrans 35570 TTG|GTAAGTTGGA...TTTTTCTTGATT/TTTTTCTTGATT...GACAG|GCT 1 1 13.147
190849890 GT-AG 0 1.000000099473604e-05 63 rna-XM_013252906.1 34091314 2 2311162 2311224 Stomoxys calcitrans 35570 GAG|GTAGGTGGCC...TCATTCTTAATT/CCTTCATTCATT...TCCAG|ATC 0 1 35.535
190849891 CT-AG 0 1.000000099473604e-05 5674 rna-XM_013252906.1 34091314 3 2305033 2310706 Stomoxys calcitrans 35570 ATA|CTAAATGAGT...AAACTTTTATCA/AAAACTTTTATC...TCTAG|TTT 2 1 49.643
190849892 GT-AG 0 1.000000099473604e-05 75 rna-XM_013252906.1 34091314 4 2304684 2304758 Stomoxys calcitrans 35570 ACG|GTGAGTCTAT...AATTTATTATCT/TTATAATTTATT...ATTAG|TTA 0 1 58.14
190849893 GT-AG 0 0.0019072208094596 136 rna-XM_013252906.1 34091314 5 2304397 2304532 Stomoxys calcitrans 35570 TGG|GTATGTTCGC...AATTCATTATTA/TTGCAATTCATT...TGTAG|GCT 1 1 62.822
190849894 GT-AG 0 1.000000099473604e-05 2348 rna-XM_013252906.1 34091314 6 2301315 2303662 Stomoxys calcitrans 35570 TAT|GTGAGTATAT...ATTTTTTTAATT/ATTTTTTTAATT...TTCAG|TAT 0 1 85.581

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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]);