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 = 15495816

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
83762975 GT-AG 0 1.000000099473604e-05 293 rna-XM_003517595.4 15495816 1 807198 807490 Glycine max 3847 AAG|GTAAGTTAAC...TTCATTTTATTT/TCGTTTTTCATT...TACAG|TGC 0 1 6.844
83762976 GT-AG 0 1.000000099473604e-05 447 rna-XM_003517595.4 15495816 2 807546 807992 Glycine max 3847 TGG|GTAATCCAAA...AGCTTATTGATC/AGCTTATTGATC...TGCAG|AAG 1 1 8.32
83762977 GT-AG 0 1.000000099473604e-05 517 rna-XM_003517595.4 15495816 3 808172 808688 Glycine max 3847 AAG|GTTAGTTTCT...TCTACTTTGGTT/GAGGGAGTAATT...TTCAG|GTG 0 1 13.124
83762978 GT-AG 0 0.0003931935945622 2195 rna-XM_003517595.4 15495816 4 809147 811341 Glycine max 3847 ACT|GTAAGCAACT...TCTTCCTTTGCT/CCTTTGCTAATT...TGTAG|ATC 2 1 25.416
83762979 GT-AG 0 1.000000099473604e-05 898 rna-XM_003517595.4 15495816 5 811883 812780 Glycine max 3847 AAG|GTAAATTAGT...TGATCTTTTGTA/ACTAATCTGATC...ACTAG|ATT 0 1 39.936
83762980 GT-AG 0 1.000000099473604e-05 230 rna-XM_003517595.4 15495816 6 812961 813190 Glycine max 3847 TTG|GTAAGTGCAT...CCTTCTATAACA/ACCAAGTTTATT...ATCAG|GTT 0 1 44.767
83762981 GT-AG 0 0.0019673005533424 770 rna-XM_003517595.4 15495816 7 814475 815244 Glycine max 3847 AAG|GTATGTATGT...ACAACTTTAACC/ACAACTTTAACC...GTTAG|GCT 0 1 79.227
83762982 GT-AG 0 0.0017859589842018 920 rna-XM_003517595.4 15495816 8 815661 816580 Glycine max 3847 ATC|GTAAGTTTTC...TGCATTTTGATT/TGCATTTTGATT...TGTAG|ATC 2 1 90.392

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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]);