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 = 28258358

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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
156964105 GT-AG 0 0.0005835654270611 946 rna-XM_027194030.1 28258358 1 396083 397028 Pocillopora damicornis 46731 AGG|GTACGTTGTC...TCTATTTTATTT/CATATATTCACA...TCAAG|AAC 1 1 11.249
156964106 GT-AG 0 1.000000099473604e-05 1198 rna-XM_027194030.1 28258358 2 393814 395011 Pocillopora damicornis 46731 TAG|GTGAGGAGAA...TTTTTTTTAAAC/TTTTTTTTAAAC...TCTAG|TGT 1 1 66.77
156964107 GT-AG 0 1.2153503159896456e-05 218 rna-XM_027194030.1 28258358 3 393502 393719 Pocillopora damicornis 46731 AGA|GTAAGTTAAC...CATACTTCAATG/ACAGTTCTAACG...TTTAG|TCA 2 1 71.643
156964108 GT-AG 0 1.000000099473604e-05 358 rna-XM_027194030.1 28258358 4 393097 393454 Pocillopora damicornis 46731 CAG|GTACAGAATT...AGTAATTTGAAA/TGAAAATTTATT...TTTAG|GTT 1 1 74.08
156964109 GT-AG 0 0.0002946957563661 437 rna-XM_027194030.1 28258358 5 392602 393038 Pocillopora damicornis 46731 CAA|GTATGTAAAA...TTAGTCTCATTC/GTTAGTCTCATT...CCTAG|CCA 2 1 77.087
156964110 GT-AG 0 0.0761125071688576 238 rna-XM_027194030.1 28258358 6 392203 392440 Pocillopora damicornis 46731 AAG|GTATACTGAT...TATTTCATAACA/TTATTATTTATT...ACCAG|AAA 1 1 85.433
156964111 GT-AG 0 1.000000099473604e-05 368 rna-XM_027194030.1 28258358 7 391773 392140 Pocillopora damicornis 46731 AAG|GTAAGATTTA...CACATCTTAAAT/CTATTATTCACA...TTCAG|TGG 0 1 88.647

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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]);