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 = 19667989

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
105497622 GT-AG 0 5.970534932909445e-05 118 rna-KI688_000484 19667989 1 1770426 1770543 Linnemannia hyalina 64524 AAG|GTGCGCTGCT...CTTACCTTATCA/ATCATTTTCATC...CTTAG|AGC 0 1 12.184
105497623 GT-AG 0 0.0001825595659072 93 rna-KI688_000484 19667989 2 1770740 1770832 Linnemannia hyalina 64524 TTG|GTATGTCGCG...ATCATTTCAATT/ATGATACTAACT...TACAG|ATA 1 1 15.629
105497624 GT-AG 0 1.000000099473604e-05 104 rna-KI688_000484 19667989 3 1771410 1771513 Linnemannia hyalina 64524 CGG|GTATGTGAAC...AACATTGTATTT/ACGATAGTAACT...TATAG|TAA 2 1 25.774
105497625 GT-AG 0 0.000539379534761 88 rna-KI688_000484 19667989 4 1771921 1772008 Linnemannia hyalina 64524 GCA|GTAAGTTTTC...TATGTCTCAGTT/TCAGTTCTGATT...CTTAG|CCC 1 1 32.929
105497626 GT-AG 0 1.000000099473604e-05 89 rna-KI688_000484 19667989 5 1772877 1772965 Linnemannia hyalina 64524 CAG|GTACGATAAA...GCATTTTTAACC/GCATTTTTAACC...ATTAG|CCC 2 1 48.189
105497627 GT-AG 0 0.0074052301012575 101 rna-KI688_000484 19667989 6 1773754 1773854 Linnemannia hyalina 64524 GCG|GTATGTTTAT...AATTTCGTATTG/GTTTCGCTAATT...TCTAG|TTC 1 1 62.043
105497628 GT-AG 0 0.0004479993756604 93 rna-KI688_000484 19667989 7 1775042 1775134 Linnemannia hyalina 64524 ACT|GTAAGTTAGA...TTTTTCCTAACA/TTTTTCCTAACA...TTTAG|ACA 0 1 82.911
105497629 GT-AG 0 1.000000099473604e-05 525 rna-KI688_000484 19667989 8 1775903 1776427 Linnemannia hyalina 64524 GGT|GTGGAGGATT...CGGTCCTAAATC/ATGAATCTCATC...ACTAG|ATG 0 1 96.414

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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]);