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 = 38015512

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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
209850152 GT-AG 0 0.0031866406619768 1635 rna-XM_028079395.1 38015512 1 27244258 27245892 Vigna unguiculata 3917 TTG|GTATTTCTTC...GATTAATTAACT/GATTAATTAACT...TGCAG|GAA 1 1 3.93
209850153 GT-AG 0 0.009995343486411 113 rna-XM_028079395.1 38015512 2 27243927 27244039 Vigna unguiculata 3917 CTG|GTTTCTTACA...TTTACCAGAATT/TATGAATTCAGT...TACAG|GGA 0 1 9.837
209850154 GT-AG 0 0.0001403223703051 74 rna-XM_028079395.1 38015512 3 27243293 27243366 Vigna unguiculata 3917 CAA|GTACGTCACT...AATTTCATAATC/TCAAATTTCATA...TGCAG|ATG 2 1 25.014
209850155 TA-GA 0 1.000000099473604e-05 4875 rna-XM_028079395.1 38015512 4 27237523 27242397 Vigna unguiculata 3917 ACT|TAGGTGGTGT...ATATATTTATAT/TATATATTTATA...GATGA|GGA 0 1 49.268
209850156 GT-AG 0 1.000000099473604e-05 2661 rna-XM_028079395.1 38015512 5 27234696 27237356 Vigna unguiculata 3917 TTG|GTCAGATAAC...GTTTGCTGGATG/TAAATACTGAGT...TGCAG|GAA 1 1 53.767
209850157 GT-AG 0 1.000000099473604e-05 82 rna-XM_028079395.1 38015512 6 27234396 27234477 Vigna unguiculata 3917 CTG|GTTCTTACCT...ATTCTCTTGCTT/TGTTTTCTCATT...TACAG|GGA 0 1 59.675
209850158 GT-AG 0 1.000000099473604e-05 101 rna-XM_028079395.1 38015512 7 27233735 27233835 Vigna unguiculata 3917 TAA|GTAAGTCAAA...CATTGCTTCACT/CATTGCTTCACT...CACAG|ATG 2 1 74.851

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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]);