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)

7 rows where transcript_id = 27391002

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Suggested facets: dinucleotide_pair, 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
152560451 CT-AG 0 1.000000099473604e-05 96 rna-XM_039114949.1 27391002 1 3082997 3083092 Phoenix dactylifera 42345 AAT|CTGAACGCTG...CTGCCGATAATT/TAATTGGTGATT...ATCAG|GAT 2 1 32.646
152560452 GT-AG 0 1.000000099473604e-05 12208 rna-XM_039114949.1 27391002 2 3070095 3082302 Phoenix dactylifera 42345 AGG|GTCAGAAATA...ATCTTCCTAACT/TATATATTCATC...ACCAG|CAA 0 1 44.008
152560453 GT-AG 0 1.8424135858596188e-05 101 rna-XM_039114949.1 27391002 3 3069937 3070037 Phoenix dactylifera 42345 GAG|GTGACTTGAC...TCTTTCTTCATA/TCTTTCTTCATA...TCCAG|ATT 0 1 44.941
152560454 GT-AG 0 0.0027682261807838 102 rna-XM_039114949.1 27391002 4 3069739 3069840 Phoenix dactylifera 42345 AGG|GTATGTTCAT...CTTGTCTTCTCC/CTCCTGCTAAAG...ATCAG|ATC 0 1 46.513
152560455 GT-AG 0 8.220449036650362e-05 83 rna-XM_039114949.1 27391002 5 3069580 3069662 Phoenix dactylifera 42345 ACT|GTTTGTAAAT...CAATTGTTATCC/ACAATTGTTATC...TGCAG|CTG 1 1 47.757
152560456 GT-AG 0 1.000000099473604e-05 3883 rna-XM_039114949.1 27391002 6 3065595 3069477 Phoenix dactylifera 42345 ATG|GTAAGTACTA...CCGTTCTTGGCT/TCTTGGCTCATA...CTGAG|TAA 1 1 49.427
152569496 GT-AG 0 1.000000099473604e-05 1133 rna-XM_039114949.1 27391002 7 3061667 3062799 Phoenix dactylifera 42345 GAG|GTAAGTCACT...ATAACTTTATCA/AACTTTATCATT...TGCAG|GGT   0 95.187

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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]);