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 = 26701884

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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
148095208 GT-AG 0 1.000000099473604e-05 3977 rna-XM_009480589.1 26701884 1 11760 15736 Pelecanus crispus 36300 CAG|GTAAGAAATA...GGTTTTTTAAAA/TTTTCACTCACT...TTCAG|GAA 2 1 12.794
148095209 GT-AG 0 1.000000099473604e-05 7773 rna-XM_009480589.1 26701884 2 15829 23601 Pelecanus crispus 36300 GAA|GTAAGAGCAC...ACACTTTTAGAA/TTGTCTGTTATT...GCCAG|TGC 1 1 20.016
148095210 GT-AG 0 1.000000099473604e-05 454 rna-XM_009480589.1 26701884 3 23727 24180 Pelecanus crispus 36300 AAG|GTGATTTATT...ACTCCTTTAAAT/CCCTTCCTTATG...CAAAG|TTT 0 1 29.827
148095211 GT-AG 0 0.0002190508142197 3336 rna-XM_009480589.1 26701884 4 24335 27670 Pelecanus crispus 36300 ACA|GTAAGTATTG...TTCTCCTTCTCT/TTTTTTTCCATT...CACAG|CCC 1 1 41.915
148095212 GT-AG 0 1.000000099473604e-05 617 rna-XM_009480589.1 26701884 5 28004 28620 Pelecanus crispus 36300 GAG|GTAAGAGGCT...CACCTCTTAAGA/GTTATTGTAACC...TTCAG|CTG 1 1 68.053
148095213 GT-AG 0 1.000000099473604e-05 1839 rna-XM_009480589.1 26701884 6 28780 30618 Pelecanus crispus 36300 CTG|GTAATATTAC...CTCCTCTTCTTT/AATGTACTGAAA...TACAG|AGT 1 1 80.534
148095214 GT-AG 0 1.000000099473604e-05 978 rna-XM_009480589.1 26701884 7 30704 31681 Pelecanus crispus 36300 GAG|GTGAGTATGG...AGCACCTTAACA/AGTGAATTAACA...CCCAG|ATC 2 1 87.206

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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]);