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)

6 rows where transcript_id = 10143864

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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
55681602 GT-AG 0 1.3181404195921489e-05 210 rna-XM_023677931.1 10143864 2 1796393 1796602 Cucurbita pepo 3663 GAG|GTAATTCTTA...TTTTTTTTTTTT/TTTTTTTTTTTT...TGCAG|GCA 0 1 76.953
55681603 GT-AG 0 1.000000099473604e-05 140 rna-XM_023677931.1 10143864 3 1796169 1796308 Cucurbita pepo 3663 AAG|GTAAAAATGA...TTTCCATTGAAT/GAATGATTCATT...CTTAG|TGG 0 1 79.163
55681604 GT-AG 0 1.000000099473604e-05 121 rna-XM_023677931.1 10143864 4 1795943 1796063 Cucurbita pepo 3663 AAG|GTCAGTCTAA...CTATCCTTTTCA/ATCCTTTTCACT...TGAAG|GAG 0 1 81.926
55681605 GT-AG 0 1.000000099473604e-05 234 rna-XM_023677931.1 10143864 5 1795600 1795833 Cucurbita pepo 3663 ATG|GTCAGCATCG...TTATGCTTAAAA/TTTATGCTTAAA...CTCAG|GTT 1 1 84.793
55681606 GT-AG 0 1.000000099473604e-05 358 rna-XM_023677931.1 10143864 6 1795090 1795447 Cucurbita pepo 3663 GAG|GTATGACAAG...CATCTCTGAACT/TTATTATTCATC...TTCAG|GCA 0 1 88.792
55693023 GT-AG 0 4.481146537950712e-05 1551 rna-XM_023677931.1 10143864 1 1799329 1800879 Cucurbita pepo 3663 CAG|GTATAAGCTT...TCTGTTTTAAAT/TTAAATCTAATT...TGCAG|ATG   0 6.709

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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]);