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 = 34753818

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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
195793671 GT-AG 0 1.000000099473604e-05 7614 rna-XM_009980813.1 34753818 1 19657 27270 Tauraco erythrolophus 121530 CAA|GTAAGGCTTG...TCTCCCTTGTTC/CCTTGTTCTATT...TGCAG|GTA 2 1 18.852
195793672 GT-AG 0 1.000000099473604e-05 3460 rna-XM_009980813.1 34753818 2 16136 19595 Tauraco erythrolophus 121530 AAG|GTAAGCCTGG...CTGACCATGCCC/TACATACTGACC...TGCAG|GAA 0 1 21.951
195793673 GT-AG 0 5.876915547440066e-05 812 rna-XM_009980813.1 34753818 3 15228 16039 Tauraco erythrolophus 121530 AAG|GTAACTGGCT...AGCTCCTTGCTA/CATTTTCTGATG...CACAG|AAC 0 1 26.829
195793674 GT-AG 0 1.000000099473604e-05 697 rna-XM_009980813.1 34753818 4 14438 15134 Tauraco erythrolophus 121530 GAG|GTAAGCGTTG...CTTTCCTGTACA/CCTGTACACACG...ACCAG|GAA 0 1 31.555
195793675 GT-AG 0 1.000000099473604e-05 2368 rna-XM_009980813.1 34753818 5 11962 14329 Tauraco erythrolophus 121530 GAG|GTACTGCCAT...GCTTCTTTCACC/GCTTCTTTCACC...ACCAG|ACA 0 1 37.043
195793676 GT-AG 0 1.000000099473604e-05 1410 rna-XM_009980813.1 34753818 6 10331 11740 Tauraco erythrolophus 121530 CCG|GTAAGGCTGG...CGCGTCTTCTCC/AGAGGTCTGACC...GGCAG|GTT 2 1 48.272
195793677 GT-AG 0 0.0001310697586642 1561 rna-XM_009980813.1 34753818 7 8684 10244 Tauraco erythrolophus 121530 GAG|GTAAACCTGT...TTTGCTTTGTTT/ACCGTGTTCAGC...CTTAG|ATA 1 1 52.642

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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]);