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 = 38690327

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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
213933185 GT-AG 0 1.000000099473604e-05 87 rna-XM_016038154.2 38690327 1 28690597 28690683 Ziziphus jujuba 326968 AAG|GTTAGTGAAG...GAGTGCTTATCC/TGAGTGCTTATC...CAAAG|GCT 1 1 73.962
213933186 GT-AG 0 1.000000099473604e-05 94 rna-XM_016038154.2 38690327 2 28690878 28690971 Ziziphus jujuba 326968 GAG|GTGATTTGCT...CTCTCCTTGTTT/CATGAGCTTATC...TTCAG|GAT 0 1 78.316
213933187 GT-AG 0 1.3115601293254471e-05 81 rna-XM_016038154.2 38690327 3 28691044 28691124 Ziziphus jujuba 326968 CAG|GTGACATTTT...TTCCCATTAATC/TTCCCATTAATC...TGCAG|ATT 0 1 79.933
213933188 GT-AG 0 1.000000099473604e-05 100 rna-XM_016038154.2 38690327 4 28691278 28691377 Ziziphus jujuba 326968 ATG|GTTTGTGCCC...TGTACCTTCAAT/TGTACCTTCAAT...TACAG|AGA 0 1 83.367
213933189 GT-AG 0 1.000000099473604e-05 115 rna-XM_016038154.2 38690327 5 28691542 28691656 Ziziphus jujuba 326968 GAA|GTAAGTGTTG...AAAAGTTTGACA/AAAAGTTTGACA...TTCAG|GAG 2 1 87.048
213933190 GT-AG 0 1.000000099473604e-05 1059 rna-XM_016038154.2 38690327 6 28691805 28692863 Ziziphus jujuba 326968 AAG|GTAAATGAAA...TAGATTTTACTC/ATTTTACTCATA...TTCAG|GTC 0 1 90.37
213933191 GT-AG 0 1.982659843044112e-05 95 rna-XM_016038154.2 38690327 7 28692987 28693081 Ziziphus jujuba 326968 AAG|GTTTGTACTT...TGTGTTTTGATT/TGTGTTTTGATT...TGCAG|GTT 0 1 93.131
213933192 GT-AG 0 1.000000099473604e-05 110 rna-XM_016038154.2 38690327 8 28693170 28693279 Ziziphus jujuba 326968 TAG|GTAATGATTT...GGTGCCTTAATG/AATTTTTTGAGG...TACAG|GTG 1 1 95.107

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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]);