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 = 11013829

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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
60947954 GC-AG 0 1.000000099473604e-05 638 rna-XM_028542247.1 11013829 1 7671874 7672511 Dendronephthya gigantea 151771 ACG|GCAATTGATT...AGTACTTTGAAA/TGAAAAATCATT...CACAG|AAG 0 1 9.681
60947955 TA-CG 0 1.000000099473604e-05 987 rna-XM_028542247.1 11013829 2 7670353 7671339 Dendronephthya gigantea 151771 GCT|TATAGATTGA...CATATCTTAGGT/GATATGCTTATA...AAACG|GCA 0 1 26.912
60947956 GT-AG 0 0.0009902518340688 93 rna-XM_028542247.1 11013829 3 7670194 7670286 Dendronephthya gigantea 151771 ACA|GTTGCATATC...AGTACTTTGAAA/TGAAAAATCATT...CACAG|GAA 0 1 29.042
60947957 GT-AG 0 0.0014777704732437 230 rna-XM_028542247.1 11013829 4 7669429 7669658 Dendronephthya gigantea 151771 CAG|GTACTTTTTG...AATTCTTTGCTT/TTAAAATTGATA...TACAG|ATT 1 1 46.305
60947958 GT-AG 0 0.0032644173006228 1271 rna-XM_028542247.1 11013829 5 7668092 7669362 Dendronephthya gigantea 151771 CAG|GTATGTTCGC...CGGCTTTTAACT/TTAAATTTGACT...GACAG|ATG 1 1 48.435
60947959 GT-AG 0 1.000000099473604e-05 558 rna-XM_028542247.1 11013829 6 7666904 7667461 Dendronephthya gigantea 151771 CAG|GTAATTACTT...ATTTTTTTCGCC/TAATTATTTATG...AATAG|ACT 1 1 68.764
60947960 GT-AG 0 1.000000099473604e-05 1435 rna-XM_028542247.1 11013829 7 7665403 7666837 Dendronephthya gigantea 151771 CAG|GTAATTTACA...AGGTTTTTGGTT/ATGAAATTAATA...TTTAG|AAT 1 1 70.894

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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]);