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 = 37957367

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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
209597709 GT-AG 0 1.000000099473604e-05 274 rna-XM_014645846.1 37957367 1 33672841 33673114 Vigna radiata 157791 AAG|GTATAAGGCC...AGGTCTGTAAAC/TGTAAACTCACT...AACAG|GCC 2 1 4.195
209597710 GT-AG 0 1.000000099473604e-05 134 rna-XM_014645846.1 37957367 2 33673129 33673262 Vigna radiata 157791 ATG|GTTTGAAAAA...ACAGCTTTGCTT/ACAAATTTTACA...AACAG|GAA 1 1 4.554
209597711 GT-AG 0 0.0001235977793852 539 rna-XM_014645846.1 37957367 3 33673361 33673899 Vigna radiata 157791 GAG|GTTGCTACAT...CGTGCCTTAGTT/TCGTGCCTTAGT...TGTAG|TGG 0 1 7.061
209597712 GT-AG 0 0.031339755232176 7086 rna-XM_014645846.1 37957367 4 33674135 33681220 Vigna radiata 157791 ACC|GTACTCGTTT...GGTTTTTTAAGA/TTAAGATTGATG...TGTAG|TGT 1 1 13.072
209597713 GT-AG 0 0.0076828225380713 106 rna-XM_014645846.1 37957367 5 33681567 33681672 Vigna radiata 157791 ATC|GTATTGTGAT...ATTCTCTGAACG/AATTCTCTGAAC...ATCAG|CTT 2 1 21.924
209597714 GT-AG 0 2.9990281193118807e-05 489 rna-XM_014645846.1 37957367 7 33684537 33685025 Vigna radiata 157791 CAG|GTAACAATAT...CATTCTTTACAT/TTATTTTTCAAT...TTCAG|GCA 0 1 91.251
209604553 GT-AG 0 1.000000099473604e-05 408 rna-XM_014645846.1 37957367 8 33685085 33685492 Vigna radiata 157791 AAG|GTAATGGTTT...TAGTCTTTGTCA/GTCTTTGTCACT...TATAG|TAC   0 92.76

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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]);