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 = 4181827

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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
21587632 GT-AG 0 7.693544395329608e-05 258 rna-XM_010695582.2 4181827 2 2921643 2921900 Beta vulgaris 161934 TAG|GTAAGCCATT...GATCCTTTAATG/TCTTAGTTTACA...GACAG|TTT 1 1 52.093
21587633 GT-AG 0 1.000000099473604e-05 86 rna-XM_010695582.2 4181827 3 2921435 2921520 Beta vulgaris 161934 AAG|GTGAGCTTTC...TCTCCTGTGACT/TTAAATTTCATC...TACAG|GGT 0 1 55.543
21587634 GT-AG 0 1.000000099473604e-05 220 rna-XM_010695582.2 4181827 4 2920936 2921155 Beta vulgaris 161934 CGG|GTGAGAGCTC...AAAATTTTACCT/AAAAATTTTACC...AACAG|GAT 0 1 63.433
21587635 GT-AG 0 0.0001670057853527 224 rna-XM_010695582.2 4181827 5 2920328 2920551 Beta vulgaris 161934 GAG|GTAGACATGT...TTTATCTTATAG/GTTTATCTTATA...TTCAG|GTG 0 1 74.293
21587636 GT-AG 0 2.104899621349836e-05 109 rna-XM_010695582.2 4181827 6 2920109 2920217 Beta vulgaris 161934 TAG|GTACTACTAA...TTAGTTTTGATC/TTAGTTTTGATC...CTTAG|GTA 2 1 77.404
21587637 GT-AG 0 1.000000099473604e-05 336 rna-XM_010695582.2 4181827 7 2919544 2919879 Beta vulgaris 161934 CTG|GTGCGTATTT...GTCTTCTTATGT/CAGTTTCTGATG...GGCAG|GTG 0 1 83.88
21593193 GT-AG 0 7.898378671166483e-05 408 rna-XM_010695582.2 4181827 1 2923449 2923856 Beta vulgaris 161934 CTG|GTAAGTTTTT...ATTTCCTTTTCT/AAAATTCTAAAT...TGCAG|GTT   0 10.068

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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]);