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 = 30001141

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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
168077361 GT-AG 0 0.0361541955676881 109 rna-XM_009362040.2 30001141 2 891289 891397 Pyrus x bretschneideri 225117 CAG|GTATACCATG...TTCTCTTTATTT/TCTTTATTTATC...CACAG|CTG 1 1 41.56
168077362 GT-AG 0 1.000000099473604e-05 122 rna-XM_009362040.2 30001141 3 890806 890927 Pyrus x bretschneideri 225117 CGA|GTGAGTTTGA...TGTGTTTTATAT/ATGTGTTTTATA...TACAG|ATT 2 1 49.403
168077363 GT-AG 0 1.000000099473604e-05 262 rna-XM_009362040.2 30001141 4 890459 890720 Pyrus x bretschneideri 225117 CAG|GTTATTTTCT...TATGCTTGAGCC/TTTTGCGTAATT...TACAG|ATT 0 1 51.249
168077364 GT-AG 0 1.462161122807291e-05 317 rna-XM_009362040.2 30001141 5 890085 890401 Pyrus x bretschneideri 225117 AAG|GTATGGAGGA...TGTCTTTTATCA/GTGTCTTTTATC...TGCAG|GCA 0 1 52.488
168077365 GT-AG 0 1.000000099473604e-05 189 rna-XM_009362040.2 30001141 6 889836 890024 Pyrus x bretschneideri 225117 GAG|GTAATTCTTG...TCTCATTTAGCT/CAGATTCTCATT...CTCAG|GGA 0 1 53.791
168077366 GT-AG 0 0.0021154925729984 526 rna-XM_009362040.2 30001141 7 889088 889613 Pyrus x bretschneideri 225117 GGG|GTATGATTTC...GTGATTTTATTT/ATTTTATTTAAA...TGCAG|GAC 0 1 58.614
168077367 GT-AG 0 1.000000099473604e-05 217 rna-XM_009362040.2 30001141 8 887410 887626 Pyrus x bretschneideri 225117 AAG|GTGAATTTTC...TGTTCCTTTTTC/CTTTTTCTGACT...TATAG|GAT 0 1 90.354
168079598 GT-AG 0 1.000000099473604e-05 203 rna-XM_009362040.2 30001141 1 893090 893292 Pyrus x bretschneideri 225117 AAG|GTGAGCGCTT...TGATTTTTAATT/TGATTTTTAATT...GTCAG|TGT   0 8.038

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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]);