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 = 10007597

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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
55033766 GT-AG 0 0.0003215254231788 107 rna-XM_008442310.2 10007597 2 3325810 3325916 Cucumis melo 3656 AAG|GTTTGTTGCA...TTTTCCTTATTC/CTTATTCTGATT...CTCAG|GAT 0 1 17.621
55033767 GT-AG 0 1.000000099473604e-05 523 rna-XM_008442310.2 10007597 3 3325061 3325583 Cucumis melo 3656 AAG|GTAATTTGAT...GATTCCTTTCTC/TTGATATTGATG...TGCAG|GTG 1 1 25.918
55033768 GT-AG 0 0.0002900842618697 358 rna-XM_008442310.2 10007597 4 3324457 3324814 Cucumis melo 3656 CTG|GTACTTGCTT...TTGACCTTATTA/TTTTGTTTCATC...TGCAG|TTC 1 1 34.949
55033769 GT-AG 0 0.2207090836468929 85 rna-XM_008442310.2 10007597 5 3324321 3324405 Cucumis melo 3656 GTG|GTATCTCCCT...ATGTTCTCATTC/CATGTTCTCATT...TCCAG|ATG 1 1 36.821
55033770 GT-AG 0 0.0001085348069222 79 rna-XM_008442310.2 10007597 6 3323981 3324059 Cucumis melo 3656 CAG|GTAGACGTTG...AATTTTTTATTT/TATTTTCTAACC...TACAG|GAA 1 1 46.402
55033771 GT-AG 0 3.4895706056011065e-05 261 rna-XM_008442310.2 10007597 7 3323552 3323812 Cucumis melo 3656 CAG|GTTTGTTCTG...AAGGTATTGATT/AAGGTATTGATT...TGCAG|AAA 1 1 52.57
55033772 GT-AG 0 1.000000099473604e-05 429 rna-XM_008442310.2 10007597 8 3322868 3323296 Cucumis melo 3656 CTG|GTAAGTCTGA...ACTTCCATGATG/ATGGTTCTAATA...AACAG|GGA 1 1 61.931
55036617 GT-AG 0 7.947269031569073e-05 822 rna-XM_008442310.2 10007597 1 3326138 3326959 Cucumis melo 3656 GAG|GTAAATTTCT...TTTCTCATAACA/TGCTTTCTCATA...TACAG|TCG   0 12.885

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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]);