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 = 10378384

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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
57021897 GT-AG 0 0.003280923519171 106 rna-XM_025116148.1 10378384 2 13441078 13441183 Cynara cardunculus 4265 AAG|GTTTCAGTTT...TCTCTTTTAATT/TCTCTTTTAATT...ATCAG|CAA 0 1 68.536
57021898 GT-AG 0 0.0615064680610727 81 rna-XM_025116148.1 10378384 3 13441432 13441512 Cynara cardunculus 4265 CAA|GTATGTTTTC...TAGTTGTTAACC/TAGTTGTTAACC...TACAG|GAC 2 1 71.936
57021899 GT-AG 0 1.000000099473604e-05 305 rna-XM_025116148.1 10378384 4 13441658 13441962 Cynara cardunculus 4265 CAG|GTGATAACTT...GAAATCTTGAAT/CTTGAATTAATT...TACAG|GTT 0 1 73.924
57021900 GT-AG 0 0.0001317008910814 86 rna-XM_025116148.1 10378384 5 13442168 13442253 Cynara cardunculus 4265 TTG|GTAAGCTTAT...AATTTTGTATTT/TGTATTTTCAAA...TTGAG|ACT 1 1 76.734
57021901 GT-AG 0 1.000000099473604e-05 122 rna-XM_025116148.1 10378384 6 13442581 13442702 Cynara cardunculus 4265 GAG|GTAATGCTAA...TGCTTCTTATCC/CAAGTTCTTATT...TGCAG|GAT 1 1 81.217
57021902 GT-AG 0 1.6269857799098096e-05 120 rna-XM_025116148.1 10378384 7 13443395 13443514 Cynara cardunculus 4265 CAG|GTAATATTTG...CATTACTTGACA/CATTACTTGACA...CTCAG|ACT 0 1 90.705
57033645 GT-AG 0 0.0046890051158902 185 rna-XM_025116148.1 10378384 1 13435822 13436006 Cynara cardunculus 4265 GAG|GTAACTTATT...TTTGTCTCGATC/ATTCTATTCATT...CTCAG|ATA   0 1.494

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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]);