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 = 27592294

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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
153481236 GT-AG 0 0.0001088427637966 376 rna-XM_024529439.1 27592294 1 24757255 24757630 Physcomitrium patens 3218 CAG|GTTCTCTCTC...TCAACCTTGTTA/AAATTATTCACT...CACAG|ATT 0 1 3.22
153481237 GT-AG 0 1.6322687823352427e-05 186 rna-XM_024529439.1 27592294 2 24756669 24756854 Physcomitrium patens 3218 CTG|GTACGTGCAA...TCTATTTTGATA/TCTATTTTGATA...GCCAG|AAA 1 1 12.165
153481238 GT-AG 0 2.4337786425307112e-05 152 rna-XM_024529439.1 27592294 3 24756320 24756471 Physcomitrium patens 3218 CAG|GTACTTGCAC...TTCTCCTTACAG/CTATTGTTGATA...TGCAG|CTC 0 1 16.57
153481239 GT-AG 0 0.0072566368606449 224 rna-XM_024529439.1 27592294 4 24755973 24756196 Physcomitrium patens 3218 AAG|GTATATATTC...AAAATCTTAAAT/CATACGTTCATG...TGCAG|AAT 0 1 19.32
153481240 GT-AG 0 1.000000099473604e-05 155 rna-XM_024529439.1 27592294 5 24755621 24755775 Physcomitrium patens 3218 AGG|GTTCGAACCT...AACGTCTTAGTG/CTTCTATTAACG...GACAG|ACT 2 1 23.725
153481241 GT-AG 0 8.643917437269848e-05 380 rna-XM_024529439.1 27592294 6 24754228 24754607 Physcomitrium patens 3218 CCG|GTATGGTACT...AGCTTTGTAACA/AGCTTTGTAACA...GTCAG|GAG 1 1 46.377
153487771 GT-AG 0 5.712711747536629e-05 271 rna-XM_024529439.1 27592294 7 24751987 24752257 Physcomitrium patens 3218 ACA|GTGAGTTTTC...AAACTCTTGACT/AAACTCTTGACT...TGCAG|GTG   0 90.429
153487772 GT-AG 0 1.000000099473604e-05 271 rna-XM_024529439.1 27592294 8 24751601 24751871 Physcomitrium patens 3218 AAG|GTATGAGCTC...GTGTTCACAACC/ATTGTGTTCACA...ACCAG|GCA   0 93.001

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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]);