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 = 30057376

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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
168293793 GT-AG 0 1.000000099473604e-05 2065 rna-XM_025166447.1 30057376 1 652 2716 Python bivittatus 176946 GAA|GTAAGTAATA...GCCTCTATAGCT/TTCTGCTATACT...CCCAG|ATT 0 1 3.049
168293794 GT-AG 0 1.000000099473604e-05 462 rna-XM_025166447.1 30057376 2 2883 3344 Python bivittatus 176946 AAG|GTGATGTGCT...TTTTCCTTGATT/CTTGATTTTATT...CTCAG|ATG 1 1 19.919
168293795 GT-AG 0 1.3747447005540864e-05 1019 rna-XM_025166447.1 30057376 3 3468 4486 Python bivittatus 176946 TAA|GTAAGTATAC...GACTTCTTGTTT/CTTGTTTTAAGA...AGCAG|ATT 1 1 32.419
168293796 GC-AG 0 1.000000099473604e-05 457 rna-XM_025166447.1 30057376 4 4621 5077 Python bivittatus 176946 AGG|GCAAGTTTAT...GTTTTTTTATAT/TGTTTTTTTATA...AACAG|CTC 0 1 46.037
168293797 GT-AG 0 9.676057708451782e-05 234 rna-XM_025166447.1 30057376 5 5187 5420 Python bivittatus 176946 TAG|GTATGTGATT...TTATCTTTGCCT/TTGTTATTTATT...TGCAG|AGA 1 1 57.114
168293798 GT-AG 0 0.0002326291485995 571 rna-XM_025166447.1 30057376 6 5500 6070 Python bivittatus 176946 GAG|GTATGACTTA...TGTTCATTGATT/TAAATGTTCATT...TTAAG|ATC 2 1 65.142
168293799 GT-AG 0 0.0012471210894071 1112 rna-XM_025166447.1 30057376 7 6220 7331 Python bivittatus 176946 TAG|GTACGTTTTC...TTAACTTTATTC/ACTGTATTAACT...TTAAG|GGT 1 1 80.285

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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]);