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)

6 rows where transcript_id = 38015515

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
209850167 GT-AG 0 1.000000099473604e-05 128 rna-XM_028072181.1 38015515 1 1290330 1290457 Vigna unguiculata 3917 AAG|GTGAGATTTA...ATTTCTTTTGTG/TTGTGTGTTATT...CTCAG|TGG 1 1 44.271
209850168 GT-AG 0 0.0001036169966217 425 rna-XM_028072181.1 38015515 2 1289598 1290022 Vigna unguiculata 3917 GAA|GTAAGCTGAA...TTTTCTTTTTCT/CTTTTTCTAATG...TGCAG|GTT 2 1 52.686
209850169 GT-AG 0 1.000000099473604e-05 81 rna-XM_028072181.1 38015515 3 1288814 1288894 Vigna unguiculata 3917 GAG|GTTAGTTTAG...TCTACTTTACTT/TTCTTGTTGATT...TTCAG|CTA 0 1 71.957
209850170 GT-AG 0 1.000000099473604e-05 123 rna-XM_028072181.1 38015515 4 1288567 1288689 Vigna unguiculata 3917 ACG|GTAATAGATT...TTTGATTTATAT/TATAGATTCATT...TACAG|GTG 1 1 75.356
209850171 GT-AG 0 3.035820395203536e-05 91 rna-XM_028072181.1 38015515 5 1288256 1288346 Vigna unguiculata 3917 TTG|GTAAGTTATA...CAGATTTTAACA/CAGATTTTAACA...TCTAG|GTA 2 1 81.387
209850172 GT-AG 0 0.1951665524785338 230 rna-XM_028072181.1 38015515 6 1287567 1287796 Vigna unguiculata 3917 CTG|GTATGCATTA...ATCTCCTTGACA/TAGAGACTAACC...TGCAG|GGC 2 1 93.969

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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]);