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 = 27699019

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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
153875713 GT-AG 0 1.000000099473604e-05 242 rna-XM_009519541.1 27699019 1 12727331 12727572 Phytophthora sojae 67593 CCT|GTAGGAGCAC...AGCTTATTGACG/TTGTAGCTTATT...CCTAG|AGG 2 1 81.763
153875714 GT-AG 0 1.000000099473604e-05 48 rna-XM_009519541.1 27699019 2 12727661 12727708 Phytophthora sojae 67593 TCC|GTGAGGAATA...CTAGTTTTACTG/GTTTTACTGATT...TGCAG|GTT 0 1 82.55
153875715 GT-AG 0 1.000000099473604e-05 72 rna-XM_009519541.1 27699019 3 12727868 12727939 Phytophthora sojae 67593 TCG|GTGAGTCCCC...GACCTTTTACTT/AGTCTTCTGACC...TGTAG|TAC 0 1 83.973
153875716 GT-AG 0 1.000000099473604e-05 74 rna-XM_009519541.1 27699019 4 12728209 12728282 Phytophthora sojae 67593 GAC|GTAAGAACAG...ATTTATTTGACT/ATTTATTTGACT...GGCAG|ACT 2 1 86.38
153875717 GT-AG 0 0.0001083955980311 101 rna-XM_009519541.1 27699019 5 12728720 12728820 Phytophthora sojae 67593 ATG|GTGCCTAGAC...AATTGTTTAACG/ATATGGTTAATT...GACAG|ATG 1 1 90.291
153875718 GT-AG 0 4.298746692450624e-05 43 rna-XM_009519541.1 27699019 6 12729213 12729255 Phytophthora sojae 67593 CCG|GTAAGTTTGA...GTGCCATTATCG/TCGCATATGATT...TGCAG|ATA 0 1 93.799
153875719 GT-AG 0 0.0006947254874101 150 rna-XM_009519541.1 27699019 7 12729430 12729579 Phytophthora sojae 67593 CCC|GTATGAGTCG...GTTGCCATATCT/CCATATCTGACA...ACTAG|GGA 0 1 95.356
153875720 GT-AG 0 1.000000099473604e-05 71 rna-XM_009519541.1 27699019 8 12729717 12729787 Phytophthora sojae 67593 CAG|GTTTGTGAAA...GCTGCCTGGATA/TCGTGATTCAAT...GACAG|CGA 2 1 96.582

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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]);