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)

9 rows where transcript_id = 14424030

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
77101519 GT-AG 0 1.000000099473604e-05 231 rna-XM_006412682.2 14424030 1 4211207 4211437 Eutrema salsugineum 72664 AGA|GTGAGTTTTT...TCTTTGTTAATG/TTGTTAATGATT...TTCAG|GAA 2 1 3.851
77101520 GT-AG 0 1.000000099473604e-05 108 rna-XM_006412682.2 14424030 2 4209553 4209660 Eutrema salsugineum 72664 CAG|GTTTGTCAAG...TTTTCCCTGATG/CATATTTTCATT...TGTAG|GTA 0 1 30.428
77101521 GT-AG 0 1.276723526698946e-05 103 rna-XM_006412682.2 14424030 3 4208091 4208193 Eutrema salsugineum 72664 GAA|GTAAGTCATC...CTTTCTTTAAGC/CAGATATTCATT...AATAG|TTT 0 1 53.791
77101522 GT-AG 0 0.0007057186487245 111 rna-XM_006412682.2 14424030 4 4207660 4207770 Eutrema salsugineum 72664 GAG|GTAACTAATA...AATATTTTAACA/AATATTTTAACA...TGTAG|GGT 2 1 59.292
77101523 GT-AG 0 1.000000099473604e-05 213 rna-XM_006412682.2 14424030 5 4205951 4206163 Eutrema salsugineum 72664 CAG|GTAAAAATTT...ACCGCATTACTG/GGTCGACTGAAT...TGTAG|GTC 1 1 85.009
77101524 GT-AG 0 1.000000099473604e-05 101 rna-XM_006412682.2 14424030 6 4205405 4205505 Eutrema salsugineum 72664 GAA|GTAAGTACAA...ACCTTCTTAGAA/CTGCCTCTGATT...TCTAG|TGA 2 1 92.659
77101525 GT-AG 0 0.0003243469897858 195 rna-XM_006412682.2 14424030 7 4205056 4205250 Eutrema salsugineum 72664 GAG|GTATGTCACT...TTGCTTTTAAAA/GATTTATTTATT...TGCAG|TTA 0 1 95.307
77101526 GT-AG 0 1.000000099473604e-05 191 rna-XM_006412682.2 14424030 8 4204761 4204951 Eutrema salsugineum 72664 AAG|GTAACAGTCT...AAGACCTAATTG/TAAGACCTAATT...TGCAG|GGA 2 1 97.095
77101527 GT-AG 0 1.000000099473604e-05 118 rna-XM_006412682.2 14424030 9 4204551 4204668 Eutrema salsugineum 72664 GTG|GTAAATACCG...TATTTCTTTGTT/TTTGACGTGATT...TGCAG|AAG 1 1 98.676

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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]);