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)

7 rows where transcript_id = 15088589

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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
81573111 GT-AG 0 0.0116472777040472 5038 rna-XM_009809459.1 15088589 1 2620 7657 Gavia stellata 37040 CTG|GTAACTTCCT...TGACTTTTAATG/GGTTTATTCATC...TCAAG|GGC 1 1 22.222
81573112 GT-AG 0 1.000000099473604e-05 1679 rna-XM_009809459.1 15088589 2 7774 9452 Gavia stellata 37040 AAG|GTAAATCTCT...CGCTTGTTAATT/TGTTAATTTACC...CACAG|GTA 0 1 37.209
81573113 GT-AG 0 0.0196505707005875 882 rna-XM_009809459.1 15088589 3 9602 10483 Gavia stellata 37040 AGC|GTATGTACCA...TGTGTTTTATTA/ATGTGTTTTATT...CACAG|ATA 2 1 56.46
81573114 GT-AG 0 0.0003214241209937 1024 rna-XM_009809459.1 15088589 4 10586 11609 Gavia stellata 37040 CAG|GTAGGTTTCT...CTCTCTTTAATG/TTAATGCTTACT...TGCAG|ACT 2 1 69.638
81573115 GT-AG 0 1.000000099473604e-05 4524 rna-XM_009809459.1 15088589 5 11637 16160 Gavia stellata 37040 TAG|GTAAGGTGGG...TTTTTCTTAATG/TTTTTTCTTAAT...TTTAG|TAT 2 1 73.127
81573116 GT-AG 0 1.27527151115363e-05 1396 rna-XM_009809459.1 15088589 6 16203 17598 Gavia stellata 37040 GAG|GTAATGTATG...TGTTTTTTAATT/TTTTTTTTTATT...CCTAG|AAA 2 1 78.553
81573117 GT-AG 0 1.000000099473604e-05 1118 rna-XM_009809459.1 15088589 7 17648 18765 Gavia stellata 37040 AAG|GTAAGCATTA...TCTATTTTGAGG/TCTATTTTGAGG...TCTAG|TCT 0 1 84.884

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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]);