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 = 5879260

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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
29939562 GT-AG 0 1.000000099473604e-05 19400 rna-XM_014951290.1 5879260 1 463147 482546 Calidris pugnax 198806 CTG|GTGAGTGCGG...CACCTCTTGGCT/TCTTGGCTCACA...TCCAG|GAT 2 1 1.05
29939563 GT-AG 0 1.000000099473604e-05 9486 rna-XM_014951290.1 5879260 2 482596 492081 Calidris pugnax 198806 ACA|GTGAGTAAAC...GTGGCTTTGAAC/TTTGAACTGATT...CACAG|GTA 0 1 7.48
29939564 GT-AG 0 1.000000099473604e-05 636 rna-XM_014951290.1 5879260 3 492123 492758 Calidris pugnax 198806 GCA|GTGAGTATCA...TTTGCCTTGTTC/CCAAGATTCAGA...TTCAG|ATT 2 1 12.861
29939565 GT-AG 0 0.0004810198072148 4868 rna-XM_014951290.1 5879260 4 492821 497688 Calidris pugnax 198806 TGG|GTATGTGACT...ATGTTCTTGGCT/GCTCCTGTCACC...TCCAG|CCA 1 1 20.997
29939566 GT-AG 0 1.000000099473604e-05 901 rna-XM_014951290.1 5879260 5 497826 498726 Calidris pugnax 198806 AAG|GTGAGTATGG...TTTTTTTCAACA/TTTTTTTTCAAC...AACAG|GTG 0 1 38.976
29939567 GT-AG 0 1.000000099473604e-05 15568 rna-XM_014951290.1 5879260 6 498768 514335 Calidris pugnax 198806 AAA|GTAAGTACCA...TTTTTCTTTTTT/TTTTTTCCCATT...GGCAG|GTT 2 1 44.357
29939568 GT-AG 0 0.0360033707716015 2562 rna-XM_014951290.1 5879260 7 514478 517039 Calidris pugnax 198806 CAG|GTACCCACCC...GACTCCTCATCC/AGGTGTCTGACT...CCCAG|GCC 0 1 62.992
29939569 GT-AG 0 1.000000099473604e-05 10332 rna-XM_014951290.1 5879260 8 517175 527506 Calidris pugnax 198806 CAG|GTGAGATGCT...TGGCTCTTGGCT/TCTTCTCCAACC...CCCAG|GTT 0 1 80.709

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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]);