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 = 18699391

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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
99736167 GT-AG 0 1.000000099473604e-05 439 rna-XM_018985488.2 18699391 1 40247089 40247527 Juglans regia 51240 CAG|GTCGGTTCAA...GCAGCTTCAATG/TGCAGCTTCAAT...ACCAG|ATC 2 1 3.94
99736168 GT-AG 0 0.1078235417115391 142 rna-XM_018985488.2 18699391 2 40244762 40244903 Juglans regia 51240 AAT|GTATTCACTA...GTGCCCCTGACT/CCCTGACTTACT...CTTAG|GCT 0 1 71.191
99736169 GT-AG 0 0.0106396877716114 99 rna-XM_018985488.2 18699391 3 40244564 40244662 Juglans regia 51240 CAG|GTATTCCATC...TCTGCCTTGTCA/GTTACATTCAGT...TGCAG|ACT 0 1 74.238
99736170 GT-AG 0 1.000000099473604e-05 523 rna-XM_018985488.2 18699391 4 40243888 40244410 Juglans regia 51240 TTG|GTAATTACTC...TTATTATTATCT/ATTATTATTATC...TGCAG|GTT 0 1 78.947
99736171 GT-AG 0 0.0003240126437877 964 rna-XM_018985488.2 18699391 5 40242760 40243723 Juglans regia 51240 TCG|GTATGGTGCT...TTTCTCTAAATT/CCAATTCTGAAT...CACAG|GAC 2 1 83.995
99736172 GT-AG 0 0.0008941990360581 141 rna-XM_018985488.2 18699391 6 40242471 40242611 Juglans regia 51240 AAG|GTAATCTTCT...TTGTTTTTACTG/ATTGTTTTTACT...TTCAG|ATT 0 1 88.55
99736173 GT-AG 0 1.000000099473604e-05 73 rna-XM_018985488.2 18699391 7 40242275 40242347 Juglans regia 51240 AAG|GTAAAGATGC...ATCACTTTGATT/TTGATTTTCAAA...TTTAG|GTT 0 1 92.336
99736174 GT-AG 0 0.0477749149845871 556 rna-XM_018985488.2 18699391 8 40241631 40242186 Juglans regia 51240 TAG|GTAACTTTTT...TTTTCCATATCA/TCAATGCTGACT...TTCAG|CTG 1 1 95.045

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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]);