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 = 6866914

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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
35747092 GT-AG 0 1.000000099473604e-05 474 rna-XM_021707421.1 6866914 1 50433 50906 Carlito syrichta 1868482 ATG|GTGAGGCCTC...AATGTTTTATTG/AAATGTTTTATT...TTCAG|GCT 0 1 8.626
35747093 GT-AG 0 1.000000099473604e-05 393 rna-XM_021707421.1 6866914 2 50977 51369 Carlito syrichta 1868482 GAG|GTACAGTGTG...GTTTTTTTGTTT/TTGTTTTTTAAT...TATAG|GCG 1 1 16.081
35747094 GT-AG 0 1.000000099473604e-05 1394 rna-XM_021707421.1 6866914 3 51447 52840 Carlito syrichta 1868482 CAG|GTGGGTGGTT...GTTCCTTTGATT/TTTGATTTTATA...AATAG|AAA 0 1 24.281
35747095 GT-AG 0 1.000000099473604e-05 510 rna-XM_021707421.1 6866914 4 52934 53443 Carlito syrichta 1868482 GTG|GTGCGTGTTC...TTATTTTTATAA/TTTATTTTTATA...TGCAG|CTT 0 1 34.185
35747096 GT-AG 0 0.0003068339241859 142 rna-XM_021707421.1 6866914 5 53627 53768 Carlito syrichta 1868482 CAG|GTATGGTCTG...TGCTTTTTAGAT/TATAATTTCATC...ATTAG|ATA 0 1 53.674
35747097 GT-AG 0 1.000000099473604e-05 498 rna-XM_021707421.1 6866914 6 53846 54343 Carlito syrichta 1868482 TAC|GTGAGTACAT...TGTGCTTTAAAA/TCATTTTTTATT...TCTAG|GCC 2 1 61.874
35747098 GT-AG 0 1.000000099473604e-05 1225 rna-XM_021707421.1 6866914 7 54502 55726 Carlito syrichta 1868482 GAG|GTAAGCCAGC...CTTTCTCTGATT/CTTTCTCTGATT...CTTAG|GCC 1 1 78.701
35747099 GT-AG 0 1.000000099473604e-05 3197 rna-XM_021707421.1 6866914 8 55816 59012 Carlito syrichta 1868482 AAG|GTCAAGTTTA...ATTGCATTAGTC/ATCTTTTGTACT...TACAG|ATG 0 1 88.179

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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]);