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 = 8392219

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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
45168988 GT-AG 0 0.0018418436540696 2335 rna-XM_027336157.1 8392219 1 2877989 2880323 Cicer arietinum 3827 TTT|GTACTATTAT...TGTTTTTTTTTT/CATTGGCATATT...AACAG|CAA 1 1 2.025
45180614 GT-AG 0 2.170391497960398e-05 191 rna-XM_027336157.1 8392219 5 2884044 2884234 Cicer arietinum 3827 TAG|GTAAATTGTT...TGTATCTTACAG/CTCTTTTTCATG...GGCAG|TTT   0 75.069
45180615 GT-AG 0 4.3998636708243605e-05 118 rna-XM_027336157.1 8392219 6 2884483 2884600 Cicer arietinum 3827 CAA|GTAAGTTCTT...GATGCTTTCACT/GATGCTTTCACT...TGTAG|TGA   0 79.945
45180616 GT-AG 0 1.000000099473604e-05 99 rna-XM_027336157.1 8392219 7 2884763 2884861 Cicer arietinum 3827 CAA|GTGGGTAATT...TAATTTTTACTG/ATAATTTTTACT...TGCAG|TAG   0 83.13
45180617 GT-AG 0 0.0003742234557775 105 rna-XM_027336157.1 8392219 8 2884937 2885041 Cicer arietinum 3827 TTG|GTAACATATC...TTACCCATATAT/CATATATTCAAT...AACAG|CTG   0 84.605
45180618 GT-AG 0 0.25770091002382 450 rna-XM_027336157.1 8392219 9 2885101 2885550 Cicer arietinum 3827 TAG|GTATGCTCTT...CTTACTTTAGCT/TGATTGCTTACT...CACAG|AGC   0 85.765
45180619 GT-AG 0 1.000000099473604e-05 183 rna-XM_027336157.1 8392219 10 2885686 2885868 Cicer arietinum 3827 TAG|GTAATGCTAT...ATCGCTTTAATC/TTTAATCTCATG...TTCAG|GCA   0 88.419

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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]);