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 = 94453

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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
498372 GT-AG 0 1.000000099473604e-05 227 rna-XM_009073064.1 94453 1 84069 84295 Acanthisitta chloris 57068 AAG|GTCAGCCCTG...CTCTTCTTACAG/CCTCTTCTTACA...TGCAG|CTA 1 1 10.207
498373 GT-AG 0 1.000000099473604e-05 3348 rna-XM_009073064.1 94453 2 80635 83982 Acanthisitta chloris 57068 AAG|GTAAGCAGGC...CTAACCTTACTT/AAAATACTAACC...GGAAG|GCT 0 1 21.318
498374 GT-AG 0 0.0001221897990562 1337 rna-XM_009073064.1 94453 3 79181 80517 Acanthisitta chloris 57068 TTG|GTAGGTTTCC...TTTTTTTTCACC/TTTTTTTTCACC...CTCAG|GCA 0 1 36.434
498375 GT-AG 0 1.9383816800880012e-05 1953 rna-XM_009073064.1 94453 4 77062 79014 Acanthisitta chloris 57068 ATG|GTAAGTCTTA...TGCATTTTAATT/AATGTATTTATT...CATAG|AAA 1 1 57.881
498376 GT-AG 0 5.0736568631144846e-05 949 rna-XM_009073064.1 94453 5 76011 76959 Acanthisitta chloris 57068 AAG|GTGTGCCTGA...TAATTCTGATTT/ATAATTCTGATT...TTCAG|ACC 1 1 71.059
498377 GT-AG 0 1.000000099473604e-05 9523 rna-XM_009073064.1 94453 6 66385 75907 Acanthisitta chloris 57068 AAG|GTAGGAGTAT...AGTTCTCTGACC/AGTTCTCTGACC...CACAG|ACT 2 1 84.367
498378 GT-AG 0 7.610189096111835e-05 834 rna-XM_009073064.1 94453 7 65463 66296 Acanthisitta chloris 57068 ATG|GTATGACATT...AAGGCTTTATTT/ACTGAACTCACA...TCCAG|AAC 0 1 95.736

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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]);