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 = 15733618

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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
84902529 GT-AG 0 1.000000099473604e-05 696 rna-XM_017753839.1 15733618 2 117610011 117610706 Gossypium arboreum 29729 CAG|GTAATAATAT...TTGTACTTGACA/CGAATTTTCACT...ATCAG|AAA 1 1 27.755
84902530 GT-AG 0 1.000000099473604e-05 227 rna-XM_017753839.1 15733618 3 117610896 117611122 Gossypium arboreum 29729 GAG|GTAAGAGTGG...AGTTTATTAATT/AGTTTATTAATT...TTTAG|GAT 1 1 31.345
84902531 GT-AG 0 0.0009597578557452 95 rna-XM_017753839.1 15733618 4 117611219 117611313 Gossypium arboreum 29729 CTG|GTATGATATT...TATTTCTTATAT/TTATTTCTTATA...TGCAG|TTA 1 1 33.169
84902532 GT-AG 0 1.000000099473604e-05 141 rna-XM_017753839.1 15733618 5 117611477 117611617 Gossypium arboreum 29729 CAG|GTAATTAGAG...TGTTTTCTAATG/TGTTTTCTAATG...TATAG|CAA 2 1 36.265
84902533 GT-AG 0 0.0001331013559591 105 rna-XM_017753839.1 15733618 6 117611751 117611855 Gossypium arboreum 29729 CAG|GTACATACAT...GCTTCCTTACTA/TGCTTCCTTACT...CACAG|ATG 0 1 38.792
84902534 GT-AG 0 0.0017141209608243 109 rna-XM_017753839.1 15733618 7 117613623 117613731 Gossypium arboreum 29729 TTG|GTATGATTTC...TTAACATTGATG/CAGGAATTAACA...AACAG|GTT 0 1 72.359
84914362 GT-AG 0 1.000000099473604e-05 875 rna-XM_017753839.1 15733618 1 117607690 117608564 Gossypium arboreum 29729 GAG|GTAAAAGAAA...TGTTGCTTAACT/TAACTTTTTATT...TACAG|CTT   0 2.147
84914363 GT-AG 0 1.000000099473604e-05 98 rna-XM_017753839.1 15733618 8 117614522 117614619 Gossypium arboreum 29729 AAG|GTAAGAAATA...GTTGCTTTTACA/GTTGCTTTTACA...TCCAG|GAA   0 87.367

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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]);