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)

6 rows where transcript_id = 7224258

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
37883849 GT-AG 0 1.000000099473604e-05 126 gene-CFOL_v3_00090 7224258 1 1170916 1171041 Cephalotus follicularis 3775 TGG|GTTAGTTAGT...AGTGATTTAATT/AGTGATTTAATT...CTCAG|GTA 2 1 12.356
37883850 GT-AG 0 0.000172733642916 175 gene-CFOL_v3_00090 7224258 2 1171159 1171333 Cephalotus follicularis 3775 ATC|GTAAGTTCTA...AAACTCTAAACT/TTATGATTCACT...TTCAG|TGG 2 1 29.167
37883851 GC-AG 0 1.000000099473604e-05 252 gene-CFOL_v3_00090 7224258 3 1171428 1171679 Cephalotus follicularis 3775 AAG|GCAAGTAAAG...GAGTTTCTAATG/TTGTGACTGACT...TGTAG|GCC 0 1 42.672
37883852 GT-AG 0 0.0032260847645737 158 gene-CFOL_v3_00090 7224258 4 1171801 1171958 Cephalotus follicularis 3775 AAT|GTAAGCTTCT...ATTCCCTTCTTT/CCAATGCTAATT...GTCAG|CTG 1 1 60.057
37883853 GT-AG 0 0.0346488964389811 379 gene-CFOL_v3_00090 7224258 5 1172073 1172451 Cephalotus follicularis 3775 CAT|GTATGTTCTA...TTTAACTTAAAT/AATTTTCTCATG...CACAG|CCA 1 1 76.437
37883854 GT-AG 0 0.0025469189724553 109 gene-CFOL_v3_00090 7224258 6 1172614 1172722 Cephalotus follicularis 3775 TAT|GTAAGTTTGT...GGTTTCTTGATT/TGGTGTCTGATT...TGCAG|AA 1 1 99.713

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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]);