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 = 33342834

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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
186783333 GT-AG 0 0.0058338929409896 5527 rna-XM_015218315.2 33342834 1 15345363 15350889 Solanum pennellii 28526 CCC|GTTCTTTTCC...ACTCTTTTGACA/ACTCTTTTGACA...GGTAG|AGG 2 1 4.94
186783334 GT-AG 0 1.000000099473604e-05 96 rna-XM_015218315.2 33342834 2 15351947 15352042 Solanum pennellii 28526 AGA|GTGAGTGGTT...GGGTTCTTAGTG/GGGGTTCTTAGT...GTCAG|GTC 0 1 28.892
186783335 GT-AG 0 1.000000099473604e-05 106 rna-XM_015218315.2 33342834 3 15352121 15352226 Solanum pennellii 28526 CAG|GTCAGAAATT...TAATTCTTCATT/TAATTCTTCATT...ACTAG|ACC 0 1 30.659
186783336 GT-AG 0 1.281077883310171 321 rna-XM_015218315.2 33342834 4 15352420 15352740 Solanum pennellii 28526 CAG|GTATCATCCC...TTGTCCTTGATT/TTTCTCCTTATC...TTTAG|CAA 1 1 35.033
186783337 GT-AT 0 1.000000099473604e-05 617 rna-XM_015218315.2 33342834 5 15352830 15353446 Solanum pennellii 28526 TTG|GTGGAGAGGG...GGTGTTTCGACC/ATGGAGTTGATG...TTGAT|TCT 0 1 37.05
186783338 GT-AG 0 1.000000099473604e-05 3246 rna-XM_015218315.2 33342834 6 15355821 15359066 Solanum pennellii 28526 CAG|GTAATTACTT...ATATTTTTGCCT/AATAAATTTATG...TGCAG|TTG 1 1 90.845
186783339 GT-AG 0 1.000000099473604e-05 753 rna-XM_015218315.2 33342834 7 15359265 15360017 Solanum pennellii 28526 AAT|GTAATGAAAG...ATCTCTTTATAT/GATCTCTTTATA...TAAAG|ATC 1 1 95.332
186783340 GT-AG 0 6.301660446604365e-05 151 rna-XM_015218315.2 33342834 8 15360137 15360287 Solanum pennellii 28526 GCA|GTAAGTTTAT...TATATTCTAATG/TATATTCTAATG...TGCAG|GGT 0 1 98.029

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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]);