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 = 24419476

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
133391803 GT-AG 0 1.000000099473604e-05 36470 rna-XM_014916303.1 24419476 1 377951 414420 Octopus bimaculoides 37653 AAG|GTGAGTGTTT...TGTTCTATAATG/CATAATTTCATT...TCTAG|AAC 1 1 1.071
133391804 GT-AG 0 9.698916381063536e-05 64415 rna-XM_014916303.1 24419476 2 414506 478920 Octopus bimaculoides 37653 AAG|GTATTGCAGT...TCATCTTTGATC/ATGTATTTCACC...TTCAG|AAT 2 1 5.207
133391805 GT-AG 0 2.337589155778392e-05 18677 rna-XM_014916303.1 24419476 3 479780 498456 Octopus bimaculoides 37653 CAG|GTAAATATTG...CTTACTTTGATT/ATTATACTTACT...GCCAG|GAA 0 1 47.007
133391806 GT-AG 0 0.00133441807707 807 rna-XM_014916303.1 24419476 4 498765 499571 Octopus bimaculoides 37653 GAG|GTAAACTTCT...TATGTCATAACT/CTGTGTATCATT...TAAAG|AAA 2 1 61.995
133391807 GT-AG 0 4.156699111882758e-05 15199 rna-XM_014916303.1 24419476 5 499726 514924 Octopus bimaculoides 37653 GAG|GTAGGTTATC...ATTTTCTTTTCT/ATATATATAACT...TTAAG|TTA 0 1 69.489
133391808 GT-AG 0 1.000000099473604e-05 4319 rna-XM_014916303.1 24419476 6 515127 519445 Octopus bimaculoides 37653 AAA|GTAAGACGTT...AATAATTTATCT/TAATAATTTATC...TGTAG|GTA 1 1 79.319
133391823 GT-AG 0 2.8984326579779067e-05 2787 rna-XM_014916303.1 24419476 7 519637 522423 Octopus bimaculoides 37653 TTG|GTAAGTATTT...TTTTCTTTTACT/TTTTCTTTTACT...TTCAG|TTA   0 88.613

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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]);