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 = 14393887

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
76886946 GT-AG 0 1.000000099473604e-05 16367 rna-XM_010150613.1 14393887 2 27103 43469 Eurypyga helias 54383 AAG|GTAGTACTTT...TTTTTCTTATAT/TTTTTTCTTATA...TTAAG|GCT 0 1 31.327
76886947 GT-AG 0 0.0002531084085402 5533 rna-XM_010150613.1 14393887 3 21404 26936 Eurypyga helias 54383 AAG|GTATGTCAGT...TCTTTTTTAATT/TCTTTTTTAATT...TTCAG|GAC 1 1 39.866
76886948 GT-AG 0 1.000000099473604e-05 362 rna-XM_010150613.1 14393887 4 20875 21236 Eurypyga helias 54383 AAG|GTAAGAGTCT...GCTGTCTTCTCT/AAATTTCTCACA...TGCAG|ATG 0 1 48.457
76886949 GT-AG 0 1.000000099473604e-05 3752 rna-XM_010150613.1 14393887 5 16628 20379 Eurypyga helias 54383 GAG|GTTAGTCTCT...TTTTTTTTAATA/TTTTTTTTAATA...TGTAG|GTG 0 1 73.92
76886950 GT-AG 0 1.2141938052656988e-05 2605 rna-XM_010150613.1 14393887 6 13878 16482 Eurypyga helias 54383 CTG|GTAAACGTAA...TTATTTTTCATG/TTATTTTTCATG...CCAAG|GTA 1 1 81.379
76886951 GT-AG 0 1.3993281604247169e-05 3134 rna-XM_010150613.1 14393887 7 10625 13758 Eurypyga helias 54383 AAG|GTAATTATGT...GTTTTTTTATTT/TATTTTTTCATA...GACAG|AGG 0 1 87.5
76886952 GT-AG 0 1.000000099473604e-05 1009 rna-XM_010150613.1 14393887 8 9534 10542 Eurypyga helias 54383 CAG|GTAATGTGGT...AACGTTTTAAAG/CCAAACTTCACT...TACAG|CAA 1 1 91.718

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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]);