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)

6 rows where transcript_id = 37928531

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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
209469190 GT-AG 0 1.000000099473604e-05 74 rna-XM_017583506.1 37928531 1 31011360 31011433 Vigna angularis 3914 TTG|GTTGGTATCT...ATTGTTTTAACT/ATTGTTTTAACT...AACAG|TTA 1 1 16.873
209469191 GT-AG 0 0.002708860786912 92 rna-XM_017583506.1 37928531 2 31011189 31011280 Vigna angularis 3914 CAG|GTATTGTGTG...TGTATCTTAACT/TAATTTTTCACT...GTCAG|GCT 2 1 18.586
209469192 GT-AG 0 1.000000099473604e-05 137 rna-XM_017583506.1 37928531 3 31010984 31011120 Vigna angularis 3914 ATG|GTAAGATTCT...CTGTTCTAAAAT/CCTGTTCTAAAA...TGTAG|GGT 1 1 20.061
209469193 GT-AG 0 5.078712786153981e-05 1219 rna-XM_017583506.1 37928531 4 31009614 31010832 Vigna angularis 3914 TAG|GTTTGTCTTT...ATTGCTGTAATA/ATTGCTGTAATA...TACAG|AAT 2 1 23.336
209469194 GC-AG 0 1.000000099473604e-05 832 rna-XM_017583506.1 37928531 5 31008090 31008921 Vigna angularis 3914 CAG|GCAGGTTCTA...TCTTCCTTACCA/ATCTTCCTTACC...TGCAG|GAT 1 1 38.343
209469195 GT-AG 0 1.823890951192729e-05 553 rna-XM_017583506.1 37928531 6 31006907 31007459 Vigna angularis 3914 CAG|GTCTAATATT...TTTTGCTTATTT/GTTTTGCTTATT...TACAG|ATT 1 1 52.006

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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]);