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)

5 rows where transcript_id = 11364026

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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
62712140 GT-AG 0 1.000000099473604e-05 688 rna-GPM918_LOCUS109 11364026 1 3189 3876 Didymodactylos carnosus 1234261 TAG|GTGAGAAATA...AATGTTTTCTCA/ATTGTTGTCAAT...TTTAG|CGG 1 1 10.951
62712141 GT-AG 0 1.000000099473604e-05 186 rna-GPM918_LOCUS109 11364026 2 4506 4691 Didymodactylos carnosus 1234261 AGG|GTAAGATCAT...AACGTTTTGAAA/AACGTTTTGAAA...TTAAG|GCC 0 1 44.551
62712142 GT-AG 0 0.0036754257388728 3662 rna-GPM918_LOCUS109 11364026 3 5077 8738 Didymodactylos carnosus 1234261 CAC|GTATGTTGAT...GGTCCTTCAGTG/CCTTCAGTGATT...AAAAG|TAC 1 1 65.118
62712143 GT-AG 0 0.0002957362330857 66 rna-GPM918_LOCUS109 11364026 4 8990 9055 Didymodactylos carnosus 1234261 GCA|GTAAGCAACT...GTTTCTTCAACA/TGTTTCTTCAAC...TTTAG|AAT 0 1 78.526
62712144 GT-AG 0 1.000000099473604e-05 239 rna-GPM918_LOCUS109 11364026 5 9214 9452 Didymodactylos carnosus 1234261 ATC|GTGACGGCAA...GGTTCTTCAACG/TGGTTCTTCAAC...TTTAG|CCC 2 1 86.966

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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]);