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 = 4621454

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Suggested facets: score, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
24327450 GT-AG 0 1.000000099473604e-05 751 rna-XM_014896817.2 4621454 1 17122006 17122756 Brachypodium distachyon 15368 CAG|GTGAGGATGC...GTGGCCTTAATT/AACATACTGATG...CGCAG|GTT 0 1 11.945
24327451 GT-AG 0 7.024522096760882e-05 2210 rna-XM_014896817.2 4621454 2 17116834 17119043 Brachypodium distachyon 15368 AAG|GTGTGCCTAT...AATGTTTTGATC/AATGTTTTGATC...TGCAG|GCG 1 1 55.787
24358249 GT-AG 0 0.0003189268794211 150 rna-XM_014896817.2 4621454 3 17115259 17115408 Brachypodium distachyon 15368 CAG|GTACACACCT...GAATACTTATTT/TGAATACTTATT...AATAG|ATC   0 76.88
24358250 GT-AG 0 1.000000099473604e-05 76 rna-XM_014896817.2 4621454 4 17115083 17115158 Brachypodium distachyon 15368 AGG|GTAAAGTGAA...CATTTCTTATCT/ACATTTCTTATC...TCTAG|GCC   0 78.36
24358251 GT-AG 0 1.000000099473604e-05 1132 rna-XM_014896817.2 4621454 5 17113899 17115030 Brachypodium distachyon 15368 TTG|GTAAGATAGA...ATTTCCATATTT/TATTTGCTCATC...TTCAG|GAA   0 79.13
24358252 GT-AG 0 2.834288028235127e-05 72 rna-XM_014896817.2 4621454 6 17113102 17113173 Brachypodium distachyon 15368 GAG|GTTTGCATGC...GACGTCTGATCA/ATCATGCTGATT...TCCAG|GAC   0 89.861
24358253 GT-AG 0 1.000000099473604e-05 894 rna-XM_014896817.2 4621454 7 17112136 17113029 Brachypodium distachyon 15368 GGT|GTAAGTACCT...TCTGTTTTGCTC/GACCAGCTAATC...TACAG|GGT   0 90.927
24358254 GT-AG 0 2.1726979773037728e-05 80 rna-XM_014896817.2 4621454 8 17111974 17112053 Brachypodium distachyon 15368 AAA|GTGAGCTTTC...CGTTCTTTATAT/TATATGTTAACA...TGCAG|GTT   0 92.14

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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]);