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 = 13851125

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
73763475 GT-AG 0 1.000000099473604e-05 143 rna-XM_012974515.1 13851125 1 2297459 2297601 Erythranthe guttata 4155 CTC|GTGAGTATTT...TAGTTTTTATCG/TTAGTTTTTATC...TGAAG|AAT 1 1 13.837
73763476 GT-AG 0 2.551572611436529e-05 527 rna-XM_012974515.1 13851125 2 2297883 2298409 Erythranthe guttata 4155 AAG|GTTCGCATCA...AAACCCTAAATA/AATAAATTGAAA...TGCAG|TCA 0 1 24.096
73763477 GT-AG 0 1.000000099473604e-05 165 rna-XM_012974515.1 13851125 3 2298648 2298812 Erythranthe guttata 4155 AAG|GTAACAGTAG...TAGATCTGATTA/ATAGATCTGATT...GGCAG|ATC 1 1 32.786
73763478 GT-AG 0 0.0486460351237717 107 rna-XM_012974515.1 13851125 4 2299134 2299240 Erythranthe guttata 4155 ACA|GTATAATTTC...TTCTCCTTCTTG/TGAATTTGTAGT...TACAG|GAG 1 1 44.505
73763479 GT-AG 0 0.0024827747429413 108 rna-XM_012974515.1 13851125 5 2299327 2299434 Erythranthe guttata 4155 ACG|GTATATAATG...ACTTTCTAAACA/TACTTTCTAAAC...CTCAG|GAA 0 1 47.645
73763480 GC-AG 0 1.000000099473604e-05 71 rna-XM_012974515.1 13851125 6 2299546 2299616 Erythranthe guttata 4155 GAG|GCAAGAACCG...CTTTTCTTATCT/ACTTTTCTTATC...TGCAG|GCA 0 1 51.698
73763481 GT-AG 0 2.112891093318444e-05 287 rna-XM_012974515.1 13851125 7 2299919 2300205 Erythranthe guttata 4155 CTG|GTAAGTTATA...CTCATTTTAACT/CTCATTTTAACT...TGCAG|GCT 2 1 62.724
73763482 GT-AG 0 1.000000099473604e-05 89 rna-XM_012974515.1 13851125 8 2300473 2300561 Erythranthe guttata 4155 CAG|GTAAATGAAA...ATATTCTGAACT/ATTATTTTCAAT...ATCAG|GGG 2 1 72.472

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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]);