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 = 5460273

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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
28028482 GT-AG 0 1.000000099473604e-05 8393 rna-XM_010132324.1 5460273 1 98887 107279 Buceros rhinoceros 175835 GAG|GTAAGGTGTA...TGTTTTTTACAA/ATGTTTTTTACA...TCTAG|TTG 0 1 9.242
28028483 GT-AG 0 0.0004730548656484 2452 rna-XM_010132324.1 5460273 2 96346 98797 Buceros rhinoceros 175835 GAG|GTATGTTCAA...CATTCTTCAAAT/TGATTTATCATT...TGCAG|GTG 2 1 16.272
28028484 GT-AG 0 1.000000099473604e-05 1677 rna-XM_010132324.1 5460273 3 94520 96196 Buceros rhinoceros 175835 TCC|GTGAGTATAG...ATTTTCTTCTTC/TACAGTCTGATT...TACAG|TTT 1 1 28.041
28028485 GT-AG 0 1.000000099473604e-05 21687 rna-XM_010132324.1 5460273 4 72702 94388 Buceros rhinoceros 175835 GAG|GTAAGGCTAT...TTCTTCTCATCT/CTTCTTCTCATC...TGCAG|AGG 0 1 38.389
28028486 GT-AG 0 1.000000099473604e-05 59265 rna-XM_010132324.1 5460273 5 13122 72386 Buceros rhinoceros 175835 CAC|GTGAGTATGA...TGTTCCTTTCTT/TTGGCACTTAAA...TTCAG|ATG 0 1 63.27
28028487 GT-AG 0 3.2031124102955832 2371 rna-XM_010132324.1 5460273 6 10662 13032 Buceros rhinoceros 175835 CAG|GTATCTTTAT...TTACCTTTATTT/CCTTTATTTATC...TGCAG|GTT 2 1 70.3
28028488 GT-AG 0 3.1172170136614e-05 3357 rna-XM_010132324.1 5460273 7 7167 10523 Buceros rhinoceros 175835 GAG|GTATGTGGAG...CACCTCTTGAAC/CTGGTTTTCATC...TCTAG|GTT 2 1 81.201
28028489 GT-AG 0 1.000000099473604e-05 620 rna-XM_010132324.1 5460273 8 6384 7003 Buceros rhinoceros 175835 GAG|GTTTGTACGT...ATACTTTTTTCT/ATACATATGACT...TTCAG|ATT 0 1 94.076

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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]);