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)

10 rows where transcript_id = 15495788

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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
83762616 GT-AG 0 0.0006552290906905 394 rna-XM_041018254.1 15495788 1 646823 647216 Glycine max 3847 CAG|GTTTTCAATT...TGCACTTTAATT/CTTTAATTCATT...TTCAG|TTT 0 1 5.932
83762617 GT-AG 0 0.0716742061065974 108 rna-XM_041018254.1 15495788 2 647340 647447 Glycine max 3847 CAG|GTACTCTTTC...TTTTTTTTATCG/CTTGTGTTAATT...TGCAG|TTG 0 1 8.605
83762618 GT-AG 0 1.000000099473604e-05 82 rna-XM_041018254.1 15495788 3 647494 647575 Glycine max 3847 ATG|GTAAGTCTTG...AATGCATTGATG/TAAATTTTCATT...TCAAG|GTG 1 1 9.605
83762619 GT-AG 0 0.0686373159458488 636 rna-XM_041018254.1 15495788 4 647737 648372 Glycine max 3847 GAG|GTTTCTTCTT...CTTTTTTTCATT/CTTTTTTTCATT...GTCAG|AGA 0 1 13.103
83762620 GT-AG 0 1.000000099473604e-05 361 rna-XM_041018254.1 15495788 5 648453 648813 Glycine max 3847 CGG|GTGAGCATTC...TGTTCTTTATTT/TTGTTCTTTATT...TTCAG|GTG 2 1 14.841
83762621 GT-AG 0 0.0041133636086314 130 rna-XM_041018254.1 15495788 6 648920 649049 Glycine max 3847 AAA|GTAATTTTTT...CAGTTTTTAATA/CAGTTTTTAATA...TGCAG|ATA 0 1 17.145
83762622 GT-AG 0 0.0004307054765586 101 rna-XM_041018254.1 15495788 7 649227 649327 Glycine max 3847 AGG|GTATATGGCT...CTTATTTTACCT/CACTTACTTATT...TGTAG|GTT 0 1 20.991
83762623 GT-AG 0 1.000000099473604e-05 353 rna-XM_041018254.1 15495788 8 652439 652791 Glycine max 3847 CAG|GTATGAGGTT...ATATTCTGATTA/AATATTCTGATT...CACAG|GTC 0 1 88.592
83762624 GT-AG 0 0.0001630870968669 84 rna-XM_041018254.1 15495788 9 653040 653123 Glycine max 3847 CAG|GTATTGTATT...TTTTTCTTGCAA/AATGGTCTGATT...TGCAG|TCC 2 1 93.981
83762625 GT-AG 0 1.5555212628439384e-05 755 rna-XM_041018254.1 15495788 10 653224 653978 Glycine max 3847 CAG|GTAATTTATG...TTATCTTTTACT/TTATCTTTTACT...AACAG|GAG 0 1 96.154

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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]);