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)

6 rows where transcript_id = 20642280

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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
110536417 GT-AG 0 4.1068358648916494e-05 128 rna-XM_008368155.3 20642280 1 21984612 21984739 Malus domestica 3750 TAG|GTATGTGAAT...ATTTTTGTAACT/GTTTCTCTTATT...ACCAG|CTG 1 1 24.178
110536418 GT-AG 0 1.000000099473604e-05 170 rna-XM_008368155.3 20642280 2 21984363 21984532 Malus domestica 3750 CAG|GTGGGTCCTT...GTCTTTTTGATG/GATGTTCTAATT...TTTAG|GTT 2 1 25.822
110536419 GT-AG 0 8.469042179050761e-05 1284 rna-XM_008368155.3 20642280 3 21983011 21984294 Malus domestica 3750 ATG|GTAATCACTT...GAGTTTTTGATG/ATGTTGCTCATC...TGTAG|GTT 1 1 27.237
110536420 GT-AG 0 1.000000099473604e-05 255 rna-XM_008368155.3 20642280 4 21982605 21982859 Malus domestica 3750 GAG|GTCAGCTAAG...GTTTTGTTATTA/TTGTTGCTCATG...TCCAG|GGT 2 1 30.379
110536421 GT-AG 0 1.000000099473604e-05 544 rna-XM_008368155.3 20642280 5 21981486 21982029 Malus domestica 3750 CAG|GTATAGGAAT...ATTTTCTTTGTT/GTGTTTTTCATG...TGCAG|AAG 1 1 42.343
110536422 GT-AG 0 2.5539085029991305e-05 106 rna-XM_008368155.3 20642280 6 21981179 21981284 Malus domestica 3750 CTG|GTAAGTTTGG...TCTCTGTTAATT/TCTCTGTTAATT...TGCAG|ACT 1 1 46.525

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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]);