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 = 29940952

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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
167734951 GT-AG 0 0.0003984796215583 2029 rna-XM_041486582.1 29940952 2 8314637 8316665 Pyrgilauda ruficollis 221976 CAG|GTATGTGATA...TTTGCCTTATTT/ATTTGCCTTATT...ATCAG|GAC 2 1 18.289
167734952 GT-AG 0 1.000000099473604e-05 5397 rna-XM_041486582.1 29940952 3 8308143 8313539 Pyrgilauda ruficollis 221976 CAG|GTACAGTTAT...CAACTATTAGAA/TTCTGTTCTACT...TTTAG|GTG 1 1 60.176
167734953 GT-AG 0 1.000000099473604e-05 3786 rna-XM_041486582.1 29940952 4 8304310 8308095 Pyrgilauda ruficollis 221976 CAG|GTGGGAATAT...AAATGCTTAAAT/AAATGCTTAAAT...TTCAG|GCA 0 1 61.97
167734954 GT-AG 0 1.000000099473604e-05 741 rna-XM_041486582.1 29940952 5 8303495 8304235 Pyrgilauda ruficollis 221976 AAG|GTGAGGAGAA...AGGGCCTTATAA/AAGACACTAATT...TACAG|ATT 2 1 64.796
167734955 GT-AG 0 1.000000099473604e-05 88 rna-XM_041486582.1 29940952 6 8303324 8303411 Pyrgilauda ruficollis 221976 GAG|GTGTGTAAGA...GTCATTTTAATC/GTCATTTTAATC...TCTAG|GTT 1 1 67.965
167734956 GT-AG 0 1.000000099473604e-05 2208 rna-XM_041486582.1 29940952 7 8300954 8303161 Pyrgilauda ruficollis 221976 GTG|GTAAGGTTCA...CTATCTTTGTTT/TTTGTTTTCACA...CGCAG|GGA 1 1 74.15
167736155 GT-AG 0 1.000000099473604e-05 1009 rna-XM_041486582.1 29940952 1 8316840 8317848 Pyrgilauda ruficollis 221976 CAA|GTAATTGCAG...TTCACCTTAGCA/TTTAAGTTAATT...TATAG|GTA   0 12.486

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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]);