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 = 20211429

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
108234282 GT-AG 0 1.000000099473604e-05 2831 rna-XM_019591060.1 20211429 1 15142500 15145330 Lupinus angustifolius 3871 TGA|GTTAGTCACT...ACTGTTTTATTT/AACTGTTTTATT...GTTAG|GTT 2 1 3.899
108234283 GT-AG 0 1.000000099473604e-05 786 rna-XM_019591060.1 20211429 2 15141550 15142335 Lupinus angustifolius 3871 GAG|GTTGGGTTAC...CTTTTTTTAGTT/TCTAGTTTAACC...TGTAG|GGA 1 1 8.025
108234284 GT-AG 0 1.000000099473604e-05 118 rna-XM_019591060.1 20211429 3 15141308 15141425 Lupinus angustifolius 3871 CAA|GTAGGGTGGC...GAAACTTTACCT/TGAAACTTTACC...TGCAG|GTT 2 1 11.145
108234285 GT-AG 0 1.000000099473604e-05 331 rna-XM_019591060.1 20211429 4 15140847 15141177 Lupinus angustifolius 3871 AAG|GTACAAGTTT...ATTTCTTTCATT/ATTTCTTTCATT...TCCAG|CAG 0 1 14.415
108234286 GT-AG 0 1.000000099473604e-05 100 rna-XM_019591060.1 20211429 5 15140688 15140787 Lupinus angustifolius 3871 AAA|GTGAGTTCCA...AGGTCCTTAAAT/TGATTACTGATT...TACAG|ATT 2 1 15.899
108234287 GT-AG 0 1.000000099473604e-05 86 rna-XM_019591060.1 20211429 6 15137505 15137590 Lupinus angustifolius 3871 AAG|GTGATGACAG...GTGGTCTTAATT/GTGGTCTTAATT...TGCAG|CTT 0 1 93.811
108234288 GT-AG 0 1.000000099473604e-05 97 rna-XM_019591060.1 20211429 7 15137321 15137417 Lupinus angustifolius 3871 AAG|GTTATTAGAG...TTGTACTTAATA/CCCTTATTTATT...ATCAG|TCC 0 1 96.0
108234289 GT-AG 0 1.000000099473604e-05 136 rna-XM_019591060.1 20211429 8 15137080 15137215 Lupinus angustifolius 3871 CAT|GTCCGTCCCT...TAACCCTTTTCT/AATATGTTAATT...AATAG|GCT 0 1 98.642

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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]);