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 = 15733623

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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
84902589 GT-AG 0 1.000000099473604e-05 1369 rna-XM_017793776.1 15733623 1 48518790 48520158 Gossypium arboreum 29729 AAG|GTCAGTGTGT...TATTTTTTAACT/TATTTTTTAACT...TGCAG|TAT 0 1 20.669
84902590 GT-AG 0 3.179230299467545e-05 250 rna-XM_017793776.1 15733623 2 48520410 48520659 Gossypium arboreum 29729 CAA|GTAATTACTC...ATTTTTTTATTC/AATTTTTTTATT...TCCAG|GAC 2 1 26.89
84902591 GT-AG 0 1.000000099473604e-05 79 rna-XM_017793776.1 15733623 3 48520787 48520865 Gossypium arboreum 29729 CTG|GTAATTACTA...AGATCTTGGAAT/GGAATATTGAAT...TGTAG|GAA 0 1 30.037
84902592 GT-AG 0 1.000000099473604e-05 126 rna-XM_017793776.1 15733623 4 48520935 48521060 Gossypium arboreum 29729 CAG|GTAATTAGGT...ATTGTCTTGGTT/CTATTGCTAATA...TCTAG|GAT 0 1 31.747
84902593 GT-AG 0 0.0101392849634345 271 rna-XM_017793776.1 15733623 5 48521199 48521469 Gossypium arboreum 29729 CTA|GTAAGCTTCA...TAATTTTTATTT/TTTTTATTTACT...ACCAG|CCA 0 1 35.167
84902594 GT-AG 0 1.0194949569198494e-05 102 rna-XM_017793776.1 15733623 6 48521572 48521673 Gossypium arboreum 29729 GAG|GTTAACAGTG...TAACTCTTAATT/TAACTCTTAATT...TACAG|ATT 0 1 37.695
84902595 GT-AG 0 6.352075068481072e-05 816 rna-XM_017793776.1 15733623 7 48522015 48522830 Gossypium arboreum 29729 GAG|GTATTAATCT...ACTCTCTTCTTC/GTGCCACTAACT...TGCAG|GCA 2 1 46.146
84902596 GT-AG 0 0.0174503574085118 1223 rna-XM_017793776.1 15733623 8 48524455 48525677 Gossypium arboreum 29729 ACG|GTATGTTTCA...GTGTCATTATTA/TTTTGTGTCATT...GTTAG|GGT 0 1 86.394

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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]);