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 = 410660

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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
2419108 GT-AG 0 0.0007951071724337 193 rna-XM_015902407.1 410660 1 355948 356140 Acropora digitifera 70779 AAG|GTACCAGTTT...AGTTCATTATCG/TGAAAGTTCATT...TACAG|AGC 1 1 11.037
2419109 GT-AG 0 1.000000099473604e-05 1957 rna-XM_015902407.1 410660 2 353726 355682 Acropora digitifera 70779 AAG|GTAAGAAGCC...CTGTTCTTAATG/TCTGTTCTTAAT...CGCAG|GCG 2 1 30.798
2419110 GT-AG 0 5.709277346402813e-05 3454 rna-XM_015902407.1 410660 3 349998 353451 Acropora digitifera 70779 CAT|GTAAGTTTAT...TCATTCTTGTAC/ATCTGAGTAACT...TTCAG|ATC 0 1 51.23
2419111 GT-AG 0 0.0035079983449633 2309 rna-XM_015902407.1 410660 4 347518 349826 Acropora digitifera 70779 ATG|GTATGTATTG...AATATCTTATAA/AAATATCTTATA...TTCAG|ATT 0 1 63.982
2419112 GT-AG 0 1.908786464637042e-05 375 rna-XM_015902407.1 410660 5 347075 347449 Acropora digitifera 70779 CTG|GTAGGTTATG...TTTCTCTGAAAT/AAGAGTCTAATT...AACAG|CGT 2 1 69.053
2419113 GT-AG 0 1.000000099473604e-05 681 rna-XM_015902407.1 410660 6 346230 346910 Acropora digitifera 70779 CAG|GTGAGAACAA...TAGTCTTTACCA/ATAGTCTTTACC...TTTAG|GTC 1 1 81.283

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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]);