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 = 26253930

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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
145281488 GT-AG 0 19.899057767617105 39 rna-gnl|WGS:LOND|AHF37_00093 26253930 2 227392 227430 Paragonimus kellicotti 100269 TCG|GTATCTTTTG...GTTTTTATAATG/GTTTTTATAATG...CAAAG|GAA 1 1 23.281
145281489 GT-AG 0 1.0607177517906514e-05 33 rna-gnl|WGS:LOND|AHF37_00093 26253930 3 227553 227585 Paragonimus kellicotti 100269 ATG|GTAAGCCCCT...CTTGTTTTAAAA/CTTGTTTTAAAA...TGTAG|GGA 0 1 42.344
145281490 GT-AG 0 1.000000099473604e-05 22479 rna-gnl|WGS:LOND|AHF37_00093 26253930 4 227664 250142 Paragonimus kellicotti 100269 CAG|GTTGGTGTTA...TTTATCTTGACC/TTTATCTTGACC...TATAG|CAT 0 1 54.531
145281491 GT-AG 0 1.000000099473604e-05 12303 rna-gnl|WGS:LOND|AHF37_00093 26253930 5 250233 262535 Paragonimus kellicotti 100269 GAA|GTGAGTTTCC...ACCTACTTGACT/CCAACCCTCATC...TTTAG|CTC 0 1 68.594
145281492 GT-AG 0 1.000000099473604e-05 1402 rna-gnl|WGS:LOND|AHF37_00093 26253930 6 262653 264054 Paragonimus kellicotti 100269 ATG|GTAAGTTGTA...GTTTCCTTCTTG/TGTCCGCTTATT...TACAG|GAA 0 1 86.875
145281493 GT-AG 0 0.0054115805611087 48 rna-gnl|WGS:LOND|AHF37_00093 26253930 1 227158 227205 Paragonimus kellicotti 100269 CAT|GTAACCAATC...CGTCTATTGAAC/ATTGAACTCATC...TCGAG|GTT   0 3.906

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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]);