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 = 24462876

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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
133657878 GT-AG 0 1.000000099473604e-05 4394 rna-XM_004391564.2 24462876 1 16731020 16735413 Odobenus rosmarus 9707 TTG|GTGAGTGCGG...GTCTTTTTATTT/TGTCTTTTTATT...CTTAG|GCA 1 1 22.313
133657879 GT-AG 0 8.330654312990338e-05 12278 rna-XM_004391564.2 24462876 2 16735581 16747858 Odobenus rosmarus 9707 AAG|GTAGTTTCTT...ATATCCATGATT/TGTGTTTTTATG...TTAAG|GTT 0 1 37.398
133657880 GT-AG 0 4.598695142284917e-05 1263 rna-XM_004391564.2 24462876 3 16747981 16749243 Odobenus rosmarus 9707 CAG|GTATAGTAAA...TAATCTTCAATG/GTGATACTAATC...TTCAG|TAT 2 1 48.419
133657881 GT-AG 0 1.000000099473604e-05 1392 rna-XM_004391564.2 24462876 4 16749330 16750721 Odobenus rosmarus 9707 TAG|GTGAGCTTGA...TCTGTCTCACCA/CTCTGTCTCACC...TGTAG|GGC 1 1 56.188
133657882 GT-AG 0 1.000000099473604e-05 997 rna-XM_004391564.2 24462876 5 16750856 16751852 Odobenus rosmarus 9707 CAG|GTAAAAAAAA...AGTTTCTTACTA/CAGTTTCTTACT...GTTAG|GAC 0 1 68.293
133657883 GT-AG 0 1.000000099473604e-05 2105 rna-XM_004391564.2 24462876 6 16752042 16754146 Odobenus rosmarus 9707 CAG|GTTGGACCTT...AAGTTTATACTA/TTTATACTAAGT...TACAG|ATC 0 1 85.366

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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]);