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 = 29376558

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
163593980 GT-AG 0 1.000000099473604e-05 1370 rna-XM_008223990.2 29376558 1 4226039 4227408 Prunus mume 102107 CAG|GTGATTTGTT...TATATTTTATTT/CTATATTTTATT...TTCAG|GAT 0 1 19.981
163593981 GT-AG 0 0.0116019888425762 87 rna-XM_008223990.2 29376558 2 4224387 4224473 Prunus mume 102107 CAG|GTATCAAATC...ATGATTTTATCA/CATGATTTTATC...TGCAG|TGC 2 1 69.149
163593982 GT-AG 0 1.9867419371063048e-05 87 rna-XM_008223990.2 29376558 3 4224158 4224244 Prunus mume 102107 AAG|GTAAATTATA...TACTTGTTAGTA/GTATATATTACA...TTCAG|TTT 0 1 73.61
163593983 GT-AG 0 0.001116433462716 341 rna-XM_008223990.2 29376558 4 4223709 4224049 Prunus mume 102107 AAG|GTACCAATAA...ATACTTTTATTA/TATACTTTTATT...TTCAG|GCA 0 1 77.003
163593984 GT-AG 0 1.000000099473604e-05 99 rna-XM_008223990.2 29376558 5 4223397 4223495 Prunus mume 102107 CAG|GTTGAGATAC...TAATCCATAATA/TAATGTGTAATC...GGCAG|AGA 0 1 83.695
163593985 GT-AG 0 1.0409449986414151e-05 1060 rna-XM_008223990.2 29376558 6 4222226 4223285 Prunus mume 102107 CAG|GTTCATAATC...CTTGCCTTATTT/CTTTTAATTATT...AACAG|CAT 0 1 87.182
163593986 GT-AG 0 1.000000099473604e-05 613 rna-XM_008223990.2 29376558 7 4221418 4222030 Prunus mume 102107 CAG|GTTTGTCATA...TTTAGTTTGACT/TTTAGTTTGACT...TACAG|GCA 0 1 93.308
163593987 GT-AG 0 0.022176867926704 630 rna-XM_008223990.2 29376558 8 4220613 4221242 Prunus mume 102107 GGG|GTACTCATTC...CGTACTTTGATG/ACCTTTCTTACT...TGCAG|AAA 1 1 98.806

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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]);