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 = 35515669

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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
199619892 GT-AG 0 9.670676905563527e-05 743 rna-XM_010219613.1 35515669 1 12011 12753 Tinamus guttatus 94827 GTG|GTAAGCGTTT...TTAATCTTATCC/TTTAATCTTATC...TTTAG|AAG 1 1 5.712
199619893 GT-AG 0 1.000000099473604e-05 9957 rna-XM_010219613.1 35515669 2 12944 22900 Tinamus guttatus 94827 TGG|GTGAGTCTAT...TAATCCTTTTCT/GATGTGATCACC...TACAG|AAA 2 1 19.45
199619894 GT-AG 0 7.684742382664153e-05 355 rna-XM_010219613.1 35515669 3 23087 23441 Tinamus guttatus 94827 TCT|GTAAGTAAAC...TTCTTTTTAAAA/TTCTTTTTAAAA...AACAG|GTA 2 1 32.899
199619895 GT-AG 0 0.0002330211738609 5274 rna-XM_010219613.1 35515669 4 23527 28800 Tinamus guttatus 94827 TTT|GTAAGTATTA...GTTTTCTTTTTT/CACCTGCTAATG...TGCAG|TTG 0 1 39.046
199619896 GT-AG 0 1.000000099473604e-05 10056 rna-XM_010219613.1 35515669 5 28969 39024 Tinamus guttatus 94827 GAG|GTCAGATTTC...CTGTCCTTGATT/CTGTCCTTGATT...GCTAG|GAG 0 1 51.193
199619897 GT-AG 0 1.000000099473604e-05 242 rna-XM_010219613.1 35515669 6 39229 39470 Tinamus guttatus 94827 CAG|GTAAGCCCAT...AGTGCATTAATA/GCTGTTTTCAGT...TACAG|CTT 0 1 65.944
199619898 GT-AG 0 1.000000099473604e-05 1058 rna-XM_010219613.1 35515669 7 39643 40700 Tinamus guttatus 94827 AAT|GTCAGTACAG...GGATCCTTTGCC/TGTAGTTTAACA...GGCAG|ATA 1 1 78.38
199619899 GT-AG 0 1.000000099473604e-05 238 rna-XM_010219613.1 35515669 8 40784 41021 Tinamus guttatus 94827 GAG|GTAGGAGATG...TTTTTTTTTTCT/TGTGGCATCATT...TGCAG|GTG 0 1 84.382

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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]);