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)

9 rows where transcript_id = 38015493

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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
209849928 GT-AG 0 1.1239302264216429e-05 99 rna-XM_028073127.1 38015493 1 34378842 34378940 Vigna unguiculata 3917 AAG|GTAACAATTA...TTTTTGTTGTTG/TTGGAGTTTATG...TGCAG|TAT 0 1 10.503
209849929 GT-AG 0 1.000000099473604e-05 96 rna-XM_028073127.1 38015493 2 34378691 34378786 Vigna unguiculata 3917 CAG|GTGAGTGAGT...TTTTCATTGATG/TGAATTTTCATT...CGCAG|AGA 1 1 11.878
209849930 GT-AG 0 1.000000099473604e-05 121 rna-XM_028073127.1 38015493 3 34378394 34378514 Vigna unguiculata 3917 AAG|GTGCAGTAGC...CTTTTGTTGATA/CTTTTGTTGATA...TGCAG|TTG 0 1 16.279
209849931 GT-AG 0 1.000000099473604e-05 73 rna-XM_028073127.1 38015493 4 34378120 34378192 Vigna unguiculata 3917 CAG|GTAAGAAACT...ATTACATTACTT/ACTTCTCTCACT...TGCAG|ACT 0 1 21.305
209849932 GT-AG 0 1.000000099473604e-05 104 rna-XM_028073127.1 38015493 5 34377756 34377859 Vigna unguiculata 3917 ATT|GTGAGTTCTT...TTTATTTTAGTA/AAGGATTTGATT...CACAG|GGG 2 1 27.807
209849933 GT-AG 0 0.001720958746297 94 rna-XM_028073127.1 38015493 6 34377345 34377438 Vigna unguiculata 3917 CAG|GTAAACTTTC...GATGTTTTAACA/GATGTTTTAACA...TGCAG|GAC 1 1 35.734
209849934 GT-AG 0 1.000000099473604e-05 789 rna-XM_028073127.1 38015493 7 34376332 34377120 Vigna unguiculata 3917 CAG|GTTAGCCATC...AAATTGTTAGAA/TGAAGTCTGATG...GGCAG|GTC 0 1 41.335
209849935 GT-AG 0 0.0238141043405307 109 rna-XM_028073127.1 38015493 11 34375855 34375963 Vigna unguiculata 3917 AAG|GTAGCTTTTC...ATAGTTTTGAAA/CACTTTTTCATT...TGCAG|GCC 2 1 50.388
209849936 GT-AG 0 0.0004309818148605 82 rna-XM_028073127.1 38015493 12 34375058 34375139 Vigna unguiculata 3917 CAG|GTTTGCCTTC...TTATTCTTTGCA/CTACCACTTATT...AGCAG|AAA 0 1 68.267

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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]);