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 = 35103534

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
197657905 GT-AG 0 0.0037501240795306 139 rna-XM_018126416.1 35103534 2 26948731 26948869 Theobroma cacao 3641 AAG|GTATCACCTC...GGATATTTGATA/CAATTGTTGAAT...GACAG|GCG 0 1 7.556
197657906 GT-AG 0 1.000000099473604e-05 189 rna-XM_018126416.1 35103534 3 26949446 26949634 Theobroma cacao 3641 ACG|GTAAGTTAAT...AACTCTATAATA/AGGCTACTAACT...CTTAG|GAA 0 1 22.359
197657907 GT-AG 0 0.0356735372944362 288 rna-XM_018126416.1 35103534 4 26950035 26950322 Theobroma cacao 3641 GAG|GTATGCTCAC...TTTTTCTTACAT/TTTTTTCTTACA...TGCAG|AAG 1 1 32.639
197657908 GT-AG 0 4.6835687303982216e-05 144 rna-XM_018126416.1 35103534 5 26951197 26951340 Theobroma cacao 3641 CAG|GTGCACACTA...AATTCTTTGACT/AATTCTTTGACT...TGCAG|GTG 2 1 55.102
197657909 GT-AG 0 6.602357389239298 175 rna-XM_018126416.1 35103534 6 26951951 26952125 Theobroma cacao 3641 CAG|GTATCTTTTG...TTTTGCTTGATA/TTTTGCTTGATA...AACAG|GCG 0 1 70.779
197657910 GT-AG 0 1.1308828253760225e-05 434 rna-XM_018126416.1 35103534 7 26952603 26953036 Theobroma cacao 3641 CAT|GTAAGATGTG...TGCTTTTTATTT/TTGCTTTTTATT...TCCAG|AGT 0 1 83.038
197671393 GT-AG 0 1.000000099473604e-05 186 rna-XM_018126416.1 35103534 1 26948339 26948524 Theobroma cacao 3641 TAG|GTACGACGAT...GAATCATTAACA/ATGGATTTAATC...TGCAG|TTA   0 5.243

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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]);