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 = 4181769

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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
21587024 GT-AG 0 1.000000099473604e-05 469 rna-XM_019248211.1 4181769 2 5458092 5458560 Beta vulgaris 161934 CAG|GTTAGTACTT...TTTGTCTTCATT/TTTGTCTTCATT...TGCAG|AAA 2 1 38.353
21587025 GT-AG 0 1.000000099473604e-05 116 rna-XM_019248211.1 4181769 3 5457834 5457949 Beta vulgaris 161934 AGT|GTGAGTAGCT...GTGATTTTATAC/CCTTGTGTCATT...AACAG|GGG 0 1 40.664
21587026 GT-AG 0 1.000000099473604e-05 107 rna-XM_019248211.1 4181769 4 5455477 5455583 Beta vulgaris 161934 TTG|GTGAGATTCT...GTTGCTTTTACA/GTTGCTTTTACA...GCCAG|GAT 0 1 77.291
21587027 GT-AG 0 0.0005239457296588 355 rna-XM_019248211.1 4181769 5 5455028 5455382 Beta vulgaris 161934 CAG|GTATATGCAA...GATTTCTTATTT/GGATTTCTTATT...TGTAG|GTA 1 1 78.821
21587028 GT-AG 0 2.1997458941571327e-05 703 rna-XM_019248211.1 4181769 6 5453873 5454575 Beta vulgaris 161934 CAG|GTTTGATACC...TTTTCCTTAAAC/TTTTTCCTTAAA...GCTAG|GCC 0 1 86.179
21587029 GT-AG 0 1.000000099473604e-05 148 rna-XM_019248211.1 4181769 7 5453017 5453164 Beta vulgaris 161934 AAG|GTTCGTTACA...TATACATTGACA/TCAATTGTCACT...GCCAG|GTC 0 1 97.705
21587030 GT-AG 0 1.000000099473604e-05 296 rna-XM_019248211.1 4181769 8 5452646 5452941 Beta vulgaris 161934 AAG|GTGAGACTTA...ATTGTCTTAATT/ATTGTCTTAATT...TTCAG|ATT 0 1 98.926
21593164 GT-AG 0 0.0044524079262715 134 rna-XM_019248211.1 4181769 1 5460892 5461025 Beta vulgaris 161934 CAG|GTATGTTTTG...TGTTCTTTTGTT/TTTGTTTGCATT...TACAG|GAA   0 5.258

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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]);