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)

6 rows where transcript_id = 17394070

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Suggested facets: dinucleotide_pair, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
92860818 GC-AG 0 1.000000099473604e-05 546 rna-XM_039210604.1 17394070 1 1614249 1614794 Hibiscus syriacus 106335 CAG|GCTCGTCTCA...GTTCTCTAGATT/TTGGGCTTGAAC...TGTAG|GTG 1 1 2.107
92860819 GT-AG 0 7.961751300011683e-05 214 rna-XM_039210604.1 17394070 2 1613817 1614030 Hibiscus syriacus 106335 AAG|GTAAACTCTT...TTTATTTGGATA/ATTTGGATAATG...ATCAG|GTT 0 1 22.989
92860820 GT-AG 0 0.0353269920436754 117 rna-XM_039210604.1 17394070 3 1613487 1613603 Hibiscus syriacus 106335 CAG|GTTTCTTTTT...AATTTTCTAATA/AATTTTCTAATA...TGCAG|GCG 0 1 43.391
92860821 GT-AG 0 3.8150729375354377e-05 76 rna-XM_039210604.1 17394070 4 1613213 1613288 Hibiscus syriacus 106335 AAG|GTATGAATTT...TAATCTATGACA/ACGGATCTCACT...TGCAG|GTA 0 1 62.356
92860822 GT-AG 0 0.0004333468426579 109 rna-XM_039210604.1 17394070 5 1612963 1613071 Hibiscus syriacus 106335 AAG|GTAAGCTAGA...TAATTCTTAACA/TAATTCTTAACA...TGCAG|ACT 0 1 75.862
92860823 GT-AG 0 0.0044426504716271 127 rna-XM_039210604.1 17394070 6 1612719 1612845 Hibiscus syriacus 106335 GAG|GTACCCACAT...GTTTCATGAGCA/CATTGTTTCATG...GACAG|GAC 0 1 87.069

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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]);