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 = 15495822

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
83763088 GT-AG 0 1.000000099473604e-05 91 rna-XM_003517700.5 15495822 1 4031901 4031991 Glycine max 3847 CAG|GTTCGTTCGT...GAGGTTTTGATT/GAGGTTTTGATT...TTCAG|CGG 0 1 12.898
83763089 GT-AG 0 2.264727896303877e-05 157 rna-XM_003517700.5 15495822 2 4031568 4031724 Glycine max 3847 CCG|GTGTGCAATT...ATAATGTTATTT/TATAATGTTATT...TTCAG|CGA 2 1 17.942
83763090 GT-AG 0 0.0022406363534966 625 rna-XM_003517700.5 15495822 3 4030829 4031453 Glycine max 3847 GAG|GTACATTTCA...TACTTATTGACT/TACTTATTGACT...TGCAG|TGT 2 1 21.21
83763091 GT-AG 0 0.0002799436090585 85 rna-XM_003517700.5 15495822 4 4030635 4030719 Glycine max 3847 ATT|GTAAGCATTA...CTTCTCCTATTT/TATTTGTTCATG...TGCAG|GTT 0 1 24.334
83763092 GT-AG 0 0.0012335396198827 1188 rna-XM_003517700.5 15495822 5 4029360 4030547 Glycine max 3847 CAG|GTATTCAGAT...ATTCTCTTTGTA/CTCTTTGTAATC...TTCAG|ATT 0 1 26.827
83763093 GT-AG 0 1.000000099473604e-05 1285 rna-XM_003517700.5 15495822 6 4027956 4029240 Glycine max 3847 CAG|GTGCTATCTG...CTTCTTTTATTT/TCTTCTTTTATT...AGCAG|GAA 2 1 30.238
83763094 GT-AG 0 2.818931534581258e-05 279 rna-XM_003517700.5 15495822 7 4027496 4027774 Glycine max 3847 CAA|GTAGGGTCTC...ATAATCTTAATC/TACATTCTTATA...TTCAG|GTT 0 1 35.426

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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]);