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 = 8933594

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
48131436 GT-AG 0 0.0007101882827754 2206 rna-XM_027297547.1 8933594 2 6446428 6448633 Coffea eugenioides 49369 CTG|GTAATCTCTC...AATATTTTGAAT/TTTTTTGTTACA...AACAG|GTT 1 1 4.497
48131437 GT-AG 0 6.14993175458407e-05 1205 rna-XM_027297547.1 8933594 3 6444141 6445345 Coffea eugenioides 49369 GAG|GTACATTGAA...TTGTCCTAGAAA/GACAGTATTATT...TGTAG|GAT 0 1 34.907
48131438 GT-AG 0 1.000000099473604e-05 1004 rna-XM_027297547.1 8933594 4 6443068 6444071 Coffea eugenioides 49369 AGT|GTAAGTGGTT...TCCCCTTTATTG/CTAATTTTCACA...TGCAG|AAT 0 1 36.847
48131439 GT-AG 0 1.000000099473604e-05 569 rna-XM_027297547.1 8933594 5 6442187 6442755 Coffea eugenioides 49369 AAG|GTGCTTTAAT...GTTTCCTCACCA/AGTTTCCTCACC...AATAG|GAT 0 1 45.616
48131440 GT-AG 0 3.467489566563064e-05 1074 rna-XM_027297547.1 8933594 6 6440954 6442027 Coffea eugenioides 49369 AAG|GTTTGGTTTT...TTTCTCTTACTC/ATTTCTCTTACT...GTTAG|GCC 0 1 50.084
48131441 GT-AG 0 1.000000099473604e-05 82 rna-XM_027297547.1 8933594 7 6439100 6439181 Coffea eugenioides 49369 AAG|GTTAGTCAGT...CCCCTCTTTATT/CCCCTCTTTATT...TTCAG|GTA 2 1 99.888
48141050 GT-AG 0 1.000000099473604e-05 404 rna-XM_027297547.1 8933594 1 6448736 6449139 Coffea eugenioides 49369 AAG|GTGATTCCTT...ATCTGCTTAATC/AATAATTTGATC...ATCAG|TGT   0 2.108

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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]);