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)

8 rows where transcript_id = 25010751

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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
137526848 GT-AG 0 0.0855930467127931 1918 rna-XM_009937978.1 25010751 1 230904 232821 Opisthocomus hoazin 30419 GGG|GTATTCTGGC...ATCTTTGTAACT/TTTGTTGTCATT...TGCAG|AAC 1 1 9.381
137526849 GT-AG 0 1.000000099473604e-05 400 rna-XM_009937978.1 25010751 2 232835 233234 Opisthocomus hoazin 30419 AAA|GTGAGTTCAG...TCTTTTTTATTT/TTCTTTTTTATT...TGTAG|GGT 2 1 10.565
137526850 GT-AG 0 1.000000099473604e-05 6105 rna-XM_009937978.1 25010751 3 233387 239491 Opisthocomus hoazin 30419 AAG|GTGAGCTGTA...TTTTTTTTAAAT/TTTTTTTTAAAT...TGCAG|TGA 1 1 24.408
137526851 GT-AG 0 1.000000099473604e-05 6310 rna-XM_009937978.1 25010751 4 239651 245960 Opisthocomus hoazin 30419 CAG|GTTGTTGTCT...TGGCTCTTAATT/TGGCTCTTAATT...TCTAG|ACA 1 1 38.889
137526852 GT-AG 0 0.0002359472191776 3778 rna-XM_009937978.1 25010751 5 246086 249863 Opisthocomus hoazin 30419 CAG|GTATGTAATC...TGCATCTTAAAA/AAACTCTTAAGT...TTCAG|GGT 0 1 50.273
137526853 GT-AG 0 0.0345336657188122 17855 rna-XM_009937978.1 25010751 6 249961 267815 Opisthocomus hoazin 30419 CTG|GTATGCTAAA...GATCCCTGAATT/AGATCCCTGAAT...CCAAG|ATT 1 1 59.107
137526854 GT-AG 0 1.000000099473604e-05 123 rna-XM_009937978.1 25010751 7 267989 268111 Opisthocomus hoazin 30419 GAG|GTAATTGGTA...GTAATCTGAATT/TGTAATCTGAAT...TGCAG|ACT 0 1 74.863
137526855 GT-AG 0 1.8035669357882e-05 2123 rna-XM_009937978.1 25010751 8 268298 270420 Opisthocomus hoazin 30419 CAG|GTAAATTCTC...GGAATGTTAACT/GGAATGTTAACT...CTCAG|AAA 0 1 91.803

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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]);