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 = 25832555

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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
143078262 GT-AG 0 1.000000099473604e-05 103 rna-XM_025944110.1 25832555 1 1988318 1988420 Panicum hallii 206008 GAG|GTAGAAATGC...ACTTCATTAACT/ACTTCATTAACT...TGCAG|TAT 0 1 13.836
143078263 GT-AG 0 0.0031408341913858 79 rna-XM_025944110.1 25832555 2 1988547 1988625 Panicum hallii 206008 CCG|GTAACTTGAA...CCAGTTTTGATG/CCAGTTTTGATG...TTTAG|GAA 0 1 17.138
143078264 GT-AG 0 0.0002372885399402 1301 rna-XM_025944110.1 25832555 3 1988824 1990124 Panicum hallii 206008 AAG|GTATGTCTCT...TAACCTTTCTCT/TATGTGCTAACC...TGCAG|CTG 0 1 22.327
143078265 GT-AG 0 0.0041800959656198 165 rna-XM_025944110.1 25832555 4 1990353 1990517 Panicum hallii 206008 AAG|GTATTATTTT...ATGGTTTTGATT/ATGGTTTTGATT...TGCAG|GAA 0 1 28.302
143078266 GT-AG 0 1.000000099473604e-05 733 rna-XM_025944110.1 25832555 5 1991661 1992393 Panicum hallii 206008 GAG|GTTTGTAATT...TAATTTCTAATG/TAATTTCTAATG...AATAG|GAA 0 1 58.255
143078267 GC-AG 0 1.000000099473604e-05 190 rna-XM_025944110.1 25832555 6 1992754 1992943 Panicum hallii 206008 CAG|GCAAGTATAC...TGTCTTTTATTT/ATGTCTTTTATT...GACAG|GTT 0 1 67.689
143078268 GT-AG 0 0.0005220412157207 273 rna-XM_025944110.1 25832555 7 1993407 1993679 Panicum hallii 206008 CAG|GTATATTCCA...AGAACTGTATTT/TTACATCTCACA...TACAG|GGA 1 1 79.822

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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]);