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 = 11013819

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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
60947756 GT-AG 0 1.000000099473604e-05 1141 rna-XM_028548114.1 11013819 1 1008130 1009270 Dendronephthya gigantea 151771 CTG|GTAAGCATAC...GATACCTGATAA/TGATACCTGATA...TTTAG|TTT 1 1 3.435
60947757 GT-AG 0 1.000000099473604e-05 423 rna-XM_028548114.1 11013819 2 1007311 1007733 Dendronephthya gigantea 151771 ACG|GTAAGGTTAC...TGTATTTTAATT/TGTATTTTAATT...TCTAG|TAT 1 1 15.578
60947758 GT-AG 0 0.0010487733798255 296 rna-XM_028548114.1 11013819 3 1006598 1006893 Dendronephthya gigantea 151771 CAG|GTATAGTGAT...GTTACCTTGACG/TTCCTTGTTACC...TTTAG|AAT 1 1 28.366
60947759 GT-AG 0 0.0010009644433201 362 rna-XM_028548114.1 11013819 4 1005837 1006198 Dendronephthya gigantea 151771 CAG|GTATGATTTA...CCATTTTTATCT/GCCATTTTTATC...TTTAG|ATT 1 1 40.601
60947760 GT-AG 0 1.000000099473604e-05 71 rna-XM_028548114.1 11013819 5 1005346 1005416 Dendronephthya gigantea 151771 GAG|GTCGGTAAAG...CATTGTTTATTT/CCATTGTTTATT...CATAG|GTT 1 1 53.481
60947761 GT-AG 0 1.000000099473604e-05 333 rna-XM_028548114.1 11013819 6 1004623 1004955 Dendronephthya gigantea 151771 CAG|GTAAAGCTTT...TTATTATTATTT/TTATTATTTATT...TCCAG|CAG 1 1 65.44
60947762 GT-AG 0 1.000000099473604e-05 125 rna-XM_028548114.1 11013819 7 1004120 1004244 Dendronephthya gigantea 151771 CAG|GTAAGTCATT...GTGGCCTTATTA/TAATTATTAACA...TTTAG|ACG 1 1 77.032
60947763 GT-AG 0 0.0016346605587281 116 rna-XM_028548114.1 11013819 8 1003826 1003941 Dendronephthya gigantea 151771 AAG|GTTTGCTTTA...TTTTTTTTGTTC/GAGGTTGTAATG...TTCAG|GAG 2 1 82.49

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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]);