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 = 76491

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Suggested facets: score, 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
346974 GT-AG 0 1.000000099473604e-05 2633 rna-XM_022223684.1 76491 2 4007964 4010596 Acanthaster planci 133434 GGG|GTGAGTTCCT...TGTCCTTTTGCC/CTCAATCTCAAA...ATCAG|GAA 1 1 21.569
346975 GT-AG 0 1.000000099473604e-05 582 rna-XM_022223684.1 76491 3 4010756 4011337 Acanthaster planci 133434 TTG|GTGAGTTCCG...AATTTCTTGACG/TTGGAACTGACC...ACCAG|ACA 1 1 27.804
346976 GT-AG 0 0.0002439041571973 1007 rna-XM_022223684.1 76491 4 4011562 4012568 Acanthaster planci 133434 ATG|GTAAGCCATT...GTTTTCTTAACG/TGTTTTCTTAAC...CCTAG|TCC 0 1 36.588
346977 GT-AG 0 1.000000099473604e-05 131 rna-XM_022223684.1 76491 5 4013247 4013377 Acanthaster planci 133434 CAG|GTAAGTCGAA...TTAATTTTATTT/ATTAATTTTATT...TGCAG|ACA 0 1 63.176
346978 GT-AG 0 0.0001580964719563 409 rna-XM_022223684.1 76491 6 4013533 4013941 Acanthaster planci 133434 ACA|GTAAGTTGGG...GAAGTCTTGAAG/GAACTCTTTATG...TACAG|CAT 2 1 69.255
346979 GT-AG 0 1.000000099473604e-05 2820 rna-XM_022223684.1 76491 7 4014156 4016975 Acanthaster planci 133434 GAG|GTAATTAATT...GATTTCTGATTT/TGATTTCTGATT...TGCAG|GTA 0 1 77.647
348251 GT-AG 0 1.000000099473604e-05 5655 rna-XM_022223684.1 76491 1 4002057 4007711 Acanthaster planci 133434 GTG|GTAAGTACAA...ATTGCCATATTT/ACGATTCTAATA...TGTAG|GTG   0 12.941

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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]);