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 = 10007604

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
55033808 GT-AG 0 2.0478389891936448e-05 94 rna-XM_008441297.2 10007604 2 2890144 2890237 Cucumis melo 3656 CAA|GTAAGTTCAG...TGAGCTTTACCA/TTGAGCTTTACC...TGCAG|GGT 1 1 63.752
55033809 GT-AG 0 0.0039490941020002 910 rna-XM_008441297.2 10007604 3 2890372 2891281 Cucumis melo 3656 AAG|GTAACATTCT...GCCTTCTTAATA/GTTATTTTGAAT...TGTAG|CTT 0 1 68.914
55033810 GT-AG 0 1.000000099473604e-05 92 rna-XM_008441297.2 10007604 4 2891523 2891614 Cucumis melo 3656 CTG|GTAATTCAGA...TTTGTCTTACAA/TTTTGTCTTACA...TGTAG|AGA 1 1 78.197
55033811 GT-AG 0 1.000000099473604e-05 74 rna-XM_008441297.2 10007604 5 2891815 2891888 Cucumis melo 3656 GTG|GTAGGTAGGA...GTTGTCTCATTG/TGTTGTCTCATT...TGTAG|GCA 0 1 85.901
55033812 GT-AG 0 1.000000099473604e-05 81 rna-XM_008441297.2 10007604 6 2891915 2891995 Cucumis melo 3656 TTG|GTAAGAATGC...TTTTCCATGAAA/GTGTTTCTCACT...GTCAG|GCA 2 1 86.903
55033813 GT-AG 0 8.57269352222794e-05 518 rna-XM_008441297.2 10007604 7 2892108 2892625 Cucumis melo 3656 ATG|GTAGGCCAAA...TTTCTTTTAATT/TTTCTTTTAATT...TACAG|ATG 0 1 91.217
55036622 GT-AG 0 1.000000099473604e-05 189 rna-XM_008441297.2 10007604 1 2888540 2888728 Cucumis melo 3656 TTG|GTGGGTTTTC...ACCATTTTGATG/TTCTGTTTGATA...AACAG|AGG   0 11.248

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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]);