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 = 10029676

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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
55136112 GT-AG 0 1.037462364846766e-05 742 rna-XM_004137327.3 10029676 3 3153958 3154699 Cucumis sativus 3659 CTG|GTATGAACTT...ATTAATTTGATT/ATTAATTTGATT...TGAAG|GTG 1 1 38.754
55136113 GT-AG 0 0.0191574898696011 1119 rna-XM_004137327.3 10029676 4 3151470 3152588 Cucumis sativus 3659 CAG|GTATGCCTCG...AAGATTTTGATT/AAGATTTTGATT...CTCAG|AAC 2 1 74.147
55136114 GT-AG 0 1.000000099473604e-05 233 rna-XM_004137327.3 10029676 5 3150957 3151189 Cucumis sativus 3659 CGG|GTAAGTGCTG...CAGGTTTTAATG/AATTGTCTCAAC...TCCAG|GAG 0 1 81.386
55136115 GT-AG 0 1.000000099473604e-05 77 rna-XM_004137327.3 10029676 6 3150772 3150848 Cucumis sativus 3659 CAG|GTCTGTGAAG...ACTTTTTTGAAA/ACTTTTTTGAAA...TGCAG|TCA 0 1 84.178
55136116 GT-AG 0 6.10665047626589e-05 497 rna-XM_004137327.3 10029676 7 3149996 3150492 Cucumis sativus 3659 AAT|GTAAGGTTTA...GCATTTTTAACA/GCATTTTTAACA...TGCAG|GTT 0 1 91.391
55136117 GT-AG 0 1.000000099473604e-05 1354 rna-XM_004137327.3 10029676 8 3148498 3149851 Cucumis sativus 3659 CAG|GTAAATTTAT...TAAATTTTCTTT/TGTTTGTTCATG...TCCAG|GAA 0 1 95.114
55149046 GT-AG 0 5.148356976739643e-05 452 rna-XM_004137327.3 10029676 1 3156175 3156626 Cucumis sativus 3659 CAG|GTGCTCCTCT...CTCTTTTTAATT/CTCTTTTTAATT...TGCAG|GAA   0 5.377
55149047 GT-AG 0 1.000000099473604e-05 167 rna-XM_004137327.3 10029676 2 3155912 3156078 Cucumis sativus 3659 TAG|GTCAGCTTCC...TATGTTATAAAT/ACTTTGGTGATT...TGCAG|ATT   0 7.859

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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]);