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 = 18602136

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Suggested facets: score, length, 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
99339822 GT-AG 0 1.000000099473604e-05 86 rna-XM_012223833.3 18602136 2 477769 477854 Jatropha curcas 180498 AAG|GTTCTATTAC...CTAGTCTTAATT/CTAGTCTTAATT...GCTAG|ATG 0 1 69.586
99339823 GT-AG 0 1.000000099473604e-05 78 rna-XM_012223833.3 18602136 3 478088 478165 Jatropha curcas 180498 CAA|GTAAAAACAT...ATATTTTTATCT/TATATTTTTATC...TGCAG|GTC 2 1 72.707
99339824 GT-AG 0 0.0010640925228473 1772 rna-XM_012223833.3 18602136 4 478311 480082 Jatropha curcas 180498 CAG|GTATGCAGAT...TTCACTTTATCT/AACTGATTCACT...GGTAG|GTT 0 1 74.648
99339825 GT-AG 0 1.000000099473604e-05 86 rna-XM_012223833.3 18602136 5 480282 480367 Jatropha curcas 180498 TCG|GTGGGAACAT...GTTACATTATCT/TTGTTAGTTACA...TTCAG|GTG 1 1 77.314
99339826 GT-AG 0 0.0005572460459295 99 rna-XM_012223833.3 18602136 6 480704 480802 Jatropha curcas 180498 CAG|GTGGCTATTT...TTATTCTTAACC/TTATTCTTAACC...GGCAG|GTG 1 1 81.813
99339827 GT-AG 0 1.000000099473604e-05 404 rna-XM_012223833.3 18602136 7 481501 481904 Jatropha curcas 180498 CAG|GTAAAAATTA...AGTGGTTTGATT/CCTATACTGACC...TCCAG|TCC 0 1 91.161
99341216 GT-AG 0 8.099890021411577e-05 181 rna-XM_012223833.3 18602136 1 472347 472527 Jatropha curcas 180498 GAG|GTAAGCTACA...TTGATTTTATTT/ATTTGTTTGATT...ATCAG|GGT   0 2.049

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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]);