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 = 36995210

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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
204419216 GT-AG 0 1.000000099473604e-05 1054 rna-XM_038849709.1 36995210 1 2224441 2225494 Tripterygium wilfordii 458696 CAA|GTTAGTCATT...GTGCTCTGAATT/TTTTTTCTGATA...TGAAG|GCA 0 1 1.429
204419217 GT-AG 0 0.0001104257675096 198 rna-XM_038849709.1 36995210 2 2225582 2225779 Tripterygium wilfordii 458696 CTG|GTAAGTTTTC...ATAATTTTAACT/ATAATTTTAACT...AACAG|GAT 0 1 4.018
204419218 GT-AG 0 1.000000099473604e-05 125 rna-XM_038849709.1 36995210 3 2225870 2225994 Tripterygium wilfordii 458696 ACT|GTGAGTAAAA...GTGGCTTGAATA/TTCTTCCTCAAG...AACAG|GCT 0 1 6.696
204419219 GT-AG 0 1.000000099473604e-05 150 rna-XM_038849709.1 36995210 4 2226082 2226231 Tripterygium wilfordii 458696 CTG|GTTAGTTCCA...TTGTCATTGATT/TTGTCATTGATT...TGTAG|ATC 0 1 9.286
204419220 GT-AG 0 0.0003526998491892 1112 rna-XM_038849709.1 36995210 5 2226331 2227442 Tripterygium wilfordii 458696 GAC|GTAAGTTTCT...ACAACTTTATTT/ACTTTATTTAGC...TGCAG|GTA 0 1 12.232
204419221 GT-AG 0 0.0341269933666149 117 rna-XM_038849709.1 36995210 6 2229579 2229695 Tripterygium wilfordii 458696 CAA|GTACCACTTT...ATAACCCTATCT/CTTCTTCCAATT...ATCAG|ATT 0 1 75.804
204419222 GT-AG 0 0.0001094148353696 948 rna-XM_038849709.1 36995210 7 2229843 2230790 Tripterygium wilfordii 458696 CAG|GTAGATTTAC...ATGCTTTTAGTC/AGAATTCTCACT...TTCAG|TTG 0 1 80.179
204419223 GT-AG 0 1.186535964824819e-05 1022 rna-XM_038849709.1 36995210 8 2231249 2232270 Tripterygium wilfordii 458696 CAG|GTACTTGCTG...GTGTTCTTATGA/AGTGTTCTTATG...TGCAG|TAA 2 1 93.81

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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]);