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 = 24462872

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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
133657855 GT-AG 0 1.000000099473604e-05 1654 rna-XM_004391481.1 24462872 1 2444094 2445747 Odobenus rosmarus 9707 AAA|GTAAGTACAG...TTTCCCTTTCTG/TTCGGCCTAAGG...CCCAG|GTT 0 1 1.596
133657856 GT-AG 0 1.000000099473604e-05 1455 rna-XM_004391481.1 24462872 2 2445850 2447304 Odobenus rosmarus 9707 AAG|GTAAAAAAAA...ACACCTTTATTT/CTTTATTTAAGA...TACAG|ATT 0 1 10.638
133657857 GT-AG 0 2.7773734421160043e-05 3826 rna-XM_004391481.1 24462872 3 2447447 2451272 Odobenus rosmarus 9707 CAG|GTATGAGTTA...ATCTCTTTACTT/TATCTCTTTACT...TTTAG|GAG 1 1 23.227
133657858 GT-AG 0 1.1056165717425182e-05 105 rna-XM_004391481.1 24462872 4 2451361 2451465 Odobenus rosmarus 9707 CAA|GTAAGGTTTT...GTTTTCTAATTC/AGTTTTCTAATT...AACAG|ACA 2 1 31.028
133657859 GT-AG 0 1.000000099473604e-05 1123 rna-XM_004391481.1 24462872 5 2451686 2452808 Odobenus rosmarus 9707 AAG|GTGAGGAGCA...TTTCCCTTTGCT/TAAAGGCACATG...CTCAG|GTG 0 1 50.532
133657860 GT-AG 0 0.0009021230943005 1229 rna-XM_004391481.1 24462872 6 2453070 2454298 Odobenus rosmarus 9707 GTG|GTATGTGATT...CATCTTTTAACC/CATCTTTTAACC...AACAG|GAA 0 1 73.67
133657861 GT-AG 0 1.7552588621522672e-05 12050 rna-XM_004391481.1 24462872 7 2454432 2466481 Odobenus rosmarus 9707 GAG|GTATGGATGA...TGTTGTTTATCT/CTGTTGTTTATC...TCCAG|GCT 1 1 85.461
133657862 GC-AG 0 1.000000099473604e-05 650 rna-XM_004391481.1 24462872 8 2466621 2467270 Odobenus rosmarus 9707 ATG|GCAAGTTGCT...GTTGTTTTAGAA/TGTTGTTTTAGA...TTCAG|TAT 2 1 97.784

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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]);