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)

6 rows where transcript_id = 14514693

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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
77700093 GT-AG 0 0.0809165015782384 161 rna-XM_027790200.1 14514693 1 9494851 9495011 Falco peregrinus 8954 AGT|GTATGTTGTG...TATTCTTTTGCT/GAATGGTTTATT...CCCAG|AAC 2 1 10.33
77700094 GT-AG 0 1.000000099473604e-05 3406 rna-XM_027790200.1 14514693 2 9495155 9498560 Falco peregrinus 8954 CAG|GTAAAGATTC...ATTTTTGTATTC/TGTACATTTATT...TACAG|GGA 1 1 22.743
77700095 GT-AG 0 0.0004193630220243 3092 rna-XM_027790200.1 14514693 3 9498698 9501789 Falco peregrinus 8954 CAG|GTAACTGTTA...AATCTCTTACAA/TTCTGTTTCACC...TCCAG|GTG 0 1 34.635
77700096 GT-AG 0 0.0001658055166927 1163 rna-XM_027790200.1 14514693 4 9501919 9503081 Falco peregrinus 8954 CAG|GTATTGTCCT...GTTGCCATGACT/GATTTTCTAAGT...TGTAG|GAT 0 1 45.833
77700097 GT-AG 0 1.5015081045949495e-05 3555 rna-XM_027790200.1 14514693 5 9503238 9506792 Falco peregrinus 8954 AAT|GTAAGTATGA...GTATTGTTGACT/GTATTGTTGACT...CCTAG|GTG 0 1 59.375
77700098 GT-AG 0 0.000158846188179 1041 rna-XM_027790200.1 14514693 6 9506977 9508017 Falco peregrinus 8954 CAG|GTAGGCACAG...TTCTCCTTAACG/GAATATTTAACA...TTCAG|AAA 1 1 75.347

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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]);