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 = 34322296

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
192366910 GT-AG 0 1.000000099473604e-05 433 rna-XM_022940802.1 34322296 1 1617164 1617596 Stylophora pistillata 50429 AAG|GTAGTAAAAG...AGGTCCTCATCT/CTGATATTAATC...TTTAG|GTT 1 1 9.299
192366911 GT-AG 0 2.985599229934953e-05 271 rna-XM_022940802.1 34322296 2 1617920 1618190 Stylophora pistillata 50429 GAG|GTAAACAAGA...AAATCTTTATTC/TAAATCTTTATT...CGCAG|CAT 0 1 32.403
192366912 GT-AG 0 1.000000099473604e-05 399 rna-XM_022940802.1 34322296 3 1618357 1618755 Stylophora pistillata 50429 TTG|GTGAGCATTT...CTCGTCATATTT/GCAGGCCTGATT...ACCAG|CTC 1 1 44.278
192366913 GT-AG 0 0.0004481008412729 512 rna-XM_022940802.1 34322296 4 1618919 1619430 Stylophora pistillata 50429 CAG|GTATGTGTCA...GGATTTTTAGTT/TTTATGTTAACT...TTCAG|TAA 2 1 55.937
192366914 GT-AG 0 1.000000099473604e-05 424 rna-XM_022940802.1 34322296 5 1619556 1619979 Stylophora pistillata 50429 TAG|GTTAGATTAA...GTAACATTACTT/TATCTGCTTACA...CGAAG|GTG 1 1 64.878
192366915 GT-AG 0 0.0095735983450442 244 rna-XM_022940802.1 34322296 6 1620071 1620314 Stylophora pistillata 50429 ATG|GTATAGATCA...TGTTCCTTAACT/TGTTCCTTAACT...TCTAG|CGG 2 1 71.388
192366916 GT-AG 0 1.000000099473604e-05 106 rna-XM_022940802.1 34322296 7 1620499 1620604 Stylophora pistillata 50429 AAT|GTAAGTAACA...TGCATTTTATTT/TTGCATTTTATT...GTTAG|GGA 0 1 84.549

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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]);