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 = 18666390

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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
99589801 GT-AG 0 0.0004652798941157 556 rna-XM_041134121.1 18666390 2 18046464 18047019 Juglans microcarpa x juglans regia 2249226 CAG|GTATTGTTCA...TTTTTTTTTTTT/CTTATGATCAAG...AGCAG|GAT 0 1 38.564
99589802 GT-AG 0 1.000000099473604e-05 311 rna-XM_041134121.1 18666390 3 18047245 18047555 Juglans microcarpa x juglans regia 2249226 TCG|GTCAGTACTT...TATTTCTTAAAA/TATTTTCTTATT...AATAG|GGG 0 1 44.683
99589803 GT-AG 0 2.686575819711034e-05 533 rna-XM_041134121.1 18666390 4 18047625 18048157 Juglans microcarpa x juglans regia 2249226 GAG|GTTAGCTTTA...ACATGCTTAATT/TTGGGGCTGATT...TTCAG|ATA 0 1 46.56
99589804 GT-AG 0 1.000000099473604e-05 114 rna-XM_041134121.1 18666390 5 18048428 18048541 Juglans microcarpa x juglans regia 2249226 ACG|GTGGGTTCTA...TTTTCTTTAGAG/TTTTGGTTCATC...TTCAG|TGC 0 1 53.903
99589805 GT-AG 0 0.4597072582538952 778 rna-XM_041134121.1 18666390 6 18048893 18049670 Juglans microcarpa x juglans regia 2249226 CAG|GTACCTTTGG...ATTTTTTTATTT/AATTTTTTTATT...GGCAG|TAT 0 1 63.448
99589806 GT-AG 0 1.000000099473604e-05 127 rna-XM_041134121.1 18666390 7 18049949 18050075 Juglans microcarpa x juglans regia 2249226 AAG|GTTAGCTTTT...TCATTCTTATAT/ATCATTCTTATA...TACAG|GGT 2 1 71.009
99601086 GT-AG 0 0.0002875164943393 644 rna-XM_041134121.1 18666390 1 18044580 18045223 Juglans microcarpa x juglans regia 2249226 TAG|GTACGCAATT...TCAATTTTGATG/GTAGTTTTCAAT...TGTAG|ATA   0 5.194

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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]);